-- dump date 20120504_162329 -- class Genbank::misc_feature -- table misc_feature_note -- id note 158879000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 158879000002 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 158879000003 Walker A motif; other site 158879000004 ATP binding site [chemical binding]; other site 158879000005 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158879000006 Walker B motif; other site 158879000007 arginine finger; other site 158879000008 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 158879000009 DnaA box-binding interface [nucleotide binding]; other site 158879000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 158879000011 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 158879000012 putative DNA binding surface [nucleotide binding]; other site 158879000013 dimer interface [polypeptide binding]; other site 158879000014 beta-clamp/clamp loader binding surface; other site 158879000015 beta-clamp/translesion DNA polymerase binding surface; other site 158879000016 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 158879000017 Recombinational DNA repair ATPase (RecF pathway) [DNA replication, recombination, and repair]; Region: RecF; COG1195 158879000018 RecF is a recombinational DNA repair ATPase that maintains replication in the presence of DNA damage. When replication is prematurely disrupted by DNA damage, several recF pathway gene products play critical roles processing the arrested replication...; Region: ABC_RecF; cd03242 158879000019 Walker A/P-loop; other site 158879000020 ATP binding site [chemical binding]; other site 158879000021 Q-loop/lid; other site 158879000022 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158879000023 ABC transporter signature motif; other site 158879000024 Walker B; other site 158879000025 D-loop; other site 158879000026 H-loop/switch region; other site 158879000027 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 158879000028 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 158879000029 Mg2+ binding site [ion binding]; other site 158879000030 G-X-G motif; other site 158879000031 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 158879000032 anchoring element; other site 158879000033 dimer interface [polypeptide binding]; other site 158879000034 ATP binding site [chemical binding]; other site 158879000035 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 158879000036 active site 158879000037 putative metal-binding site [ion binding]; other site 158879000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 158879000039 DNA gyrase subunit A; Validated; Region: PRK05560 158879000040 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 158879000041 CAP-like domain; other site 158879000042 active site 158879000043 primary dimer interface [polypeptide binding]; other site 158879000044 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 158879000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 158879000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 158879000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 158879000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 158879000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 158879000050 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 158879000051 putative substrate binding site [chemical binding]; other site 158879000052 putative ATP binding site [chemical binding]; other site 158879000053 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 158879000054 active sites [active] 158879000055 tetramer interface [polypeptide binding]; other site 158879000056 seryl-tRNA synthetase; Provisional; Region: PRK05431 158879000057 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 158879000058 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 158879000059 dimer interface [polypeptide binding]; other site 158879000060 active site 158879000061 motif 1; other site 158879000062 motif 2; other site 158879000063 motif 3; other site 158879000064 AzlC protein; Region: AzlC; cl00570 158879000065 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 158879000066 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 158879000067 homoserine O-acetyltransferase; Provisional; Region: metX; cl15472 158879000068 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 158879000069 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 158879000070 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 158879000071 DHH family; Region: DHH; pfam01368 158879000072 DHHA1 domain; Region: DHHA1; pfam02272 158879000073 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 158879000074 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 158879000075 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 158879000076 replicative DNA helicase; Region: DnaB; TIGR00665 158879000077 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 158879000078 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 158879000079 Walker A motif; other site 158879000080 ATP binding site [chemical binding]; other site 158879000081 Walker B motif; other site 158879000082 DNA binding loops [nucleotide binding] 158879000083 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 158879000084 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 158879000085 GDP-binding site [chemical binding]; other site 158879000086 ACT binding site; other site 158879000087 IMP binding site; other site 158879000088 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 158879000089 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 158879000090 active site 158879000091 phosphorylation site [posttranslational modification] 158879000092 intermolecular recognition site; other site 158879000093 dimerization interface [polypeptide binding]; other site 158879000094 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 158879000095 DNA binding site [nucleotide binding] 158879000096 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 158879000097 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 158879000098 dimerization interface [polypeptide binding]; other site 158879000099 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 158879000100 putative active site [active] 158879000101 heme pocket [chemical binding]; other site 158879000102 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 158879000103 dimer interface [polypeptide binding]; other site 158879000104 phosphorylation site [posttranslational modification] 158879000105 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 158879000106 ATP binding site [chemical binding]; other site 158879000107 Mg2+ binding site [ion binding]; other site 158879000108 G-X-G motif; other site 158879000109 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4863 158879000110 YycH protein; Region: YycH; pfam07435 158879000111 YycH protein; Region: YycI; cl02015 158879000112 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 158879000113 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 158879000114 Staphylococcus aureus SA0022 and related proteins, N-terminal metallophosphatase domain; Region: MPP_SA0022_N; cd07408 158879000115 putative active site [active] 158879000116 putative metal binding site [ion binding]; other site 158879000117 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 158879000118 Gram positive anchor; Region: Gram_pos_anchor; cl15427 158879000119 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; cl00679 158879000120 Domain of unknown function (DUF3578); Region: DUF3578; pfam12102 158879000121 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 158879000122 Integrase core domain; Region: rve; cl01316 158879000123 Replication protein; Region: Rep_1; cl02412 158879000124 Replication protein; Region: Rep_1; cl02412 158879000125 similar to hypothetical protein 158879000126 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 158879000127 Bleomycin binding protein (BLMA) and similar proteins; BLMA confers bleomycin (Bm) resistance by directly binding to Bm; Region: BLMA_like; cd08349 158879000128 dimer interface [polypeptide binding]; other site 158879000129 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 158879000130 ligand binding site [chemical binding]; other site 158879000131 Nucleotidyltransferase (NT) domain of DNA polymerase beta and similar proteins; Region: NT_Pol-beta-like; cd05397 158879000132 metal binding triad [ion binding]; metal-binding site 158879000133 KNTase C-terminal domain; Region: KNTase_C; pfam07827 158879000134 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 158879000135 Integrase core domain; Region: rve; cl01316 158879000136 3-hydroxy-3-methylglutaryl CoA synthase [Lipid metabolism]; Region: PksG; COG3425 158879000137 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 158879000138 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 158879000139 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 158879000140 putative active site [active] 158879000141 catalytic site [active] 158879000142 putative metal binding site [ion binding]; other site 158879000143 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 158879000144 putative active site [active] 158879000145 putative catalytic site [active] 158879000146 NTF2-like N-terminal transpeptidase domain; Region: MecA_N; pfam05223 158879000147 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 158879000148 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 158879000149 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 158879000150 Peptidase family M48; Region: Peptidase_M48; cl12018 158879000151 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 158879000152 Helix-turn-helix domains; Region: HTH; cl00088 158879000153 Helix-turn-helix domains; Region: HTH; cl00088 158879000154 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 158879000155 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 158879000156 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 158879000157 active site residue [active] 158879000158 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 158879000159 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 158879000160 active site residue [active] 158879000161 SirA_RHOD_Pry_redox. SirA-like domain located within a multidomain protein of unknown function. Other domains include RHOD (rhodanese homology domain), and Pry_redox (pyridine nucleotide-disulphide oxidoreductase) as well as a C-terminal domain that...; Region: SirA_RHOD_Pry_redox; cd03420 158879000162 CPxP motif; other site 158879000163 DsrE/DsrF-like family; Region: DrsE; cl00672 158879000164 Uncharacterized protein YrkD from Bacillus subtilis and related domains; this domain superfamily was previously known as part of DUF156; Region: BsYrkD-like_DUF156; cd10155 158879000165 putative homotetramer interface [polypeptide binding]; other site 158879000166 putative homodimer interface [polypeptide binding]; other site 158879000167 putative metal binding site [ion binding]; other site 158879000168 putative homodimer-homodimer interface [polypeptide binding]; other site 158879000169 putative allosteric switch controlling residues; other site 158879000170 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 158879000171 S-adenosylmethionine binding site [chemical binding]; other site 158879000172 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 158879000173 S-adenosylmethionine binding site [chemical binding]; other site 158879000174 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 158879000175 active site 158879000176 NTP binding site [chemical binding]; other site 158879000177 metal binding triad [ion binding]; metal-binding site 158879000178 antibiotic binding site [chemical binding]; other site 158879000179 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 158879000180 Tn544B and related transposases, DNA breaking-rejoining enzymes, integrase/recombinases, catalytic domain. This CD includes various bacterial transposases similar to TnpB from transposon Tn554; Region: INT_Tn544B_C; cd01195 158879000181 Phage integrase family; Region: Phage_integrase; pfam00589 158879000182 Int/Topo IB signature motif; other site 158879000183 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 158879000184 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 158879000185 Tn544A and related transposases, DNA breaking-rejoining enzymes, integrase/recombinases, C-terminal catalytic domain. This CD includes various bacterial transposases similar to TnpA from transposon Tn554; Region: INT_Tn554A_C; cd01194 158879000186 Int/Topo IB signature motif; other site 158879000187 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 158879000188 MPN+ (JAMM) motif; other site 158879000189 Zinc-binding site [ion binding]; other site 158879000190 Protein of unknown function (DUF1643); Region: DUF1643; cl01787 158879000191 Staphylococcal protein of unknown function (DUF960); Region: DUF960; pfam06124 158879000192 Staphylococcus protein of unknown function (DUF950); Region: DUF950; pfam06106 158879000193 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 158879000194 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 158879000195 catalytic residues [active] 158879000196 catalytic nucleophile [active] 158879000197 Presynaptic Site I dimer interface [polypeptide binding]; other site 158879000198 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 158879000199 Synaptic Flat tetramer interface [polypeptide binding]; other site 158879000200 Synaptic Site I dimer interface [polypeptide binding]; other site 158879000201 DNA binding site [nucleotide binding] 158879000202 Recombinase; Region: Recombinase; pfam07508 158879000203 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 158879000204 Transcription factor/nuclear export subunit protein 2; Region: Tho2; pfam11262 158879000205 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 158879000206 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cd00338 158879000207 catalytic residues [active] 158879000208 catalytic nucleophile [active] 158879000209 Recombinase; Region: Recombinase; pfam07508 158879000210 Domain of unknown function (DUF927); Region: DUF927; cl12098 158879000211 Domain of unknown function (DUF1413); Region: DUF1413; pfam07205 158879000212 Integrase core domain; Region: rve; cl01316 158879000213 Integrase core domain; Region: rve_3; cl15866 158879000214 putative transposase OrfB; Reviewed; Region: PHA02517 158879000215 orotate phosphoribosyltransferase-like protein; Provisional; Region: PRK02277 158879000216 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 158879000217 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 158879000218 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 158879000219 active site 158879000220 phosphorylation site [posttranslational modification] 158879000221 intermolecular recognition site; other site 158879000222 dimerization interface [polypeptide binding]; other site 158879000223 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 158879000224 DNA binding site [nucleotide binding] 158879000225 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 158879000226 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 158879000227 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 158879000228 Ligand Binding Site [chemical binding]; other site 158879000229 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 158879000230 dimer interface [polypeptide binding]; other site 158879000231 phosphorylation site [posttranslational modification] 158879000232 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 158879000233 ATP binding site [chemical binding]; other site 158879000234 Mg2+ binding site [ion binding]; other site 158879000235 G-X-G motif; other site 158879000236 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 158879000237 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 158879000238 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 158879000239 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 158879000240 K+-transporting ATPase, c chain; Region: KdpC; cl00944 158879000241 Domain of unknown function (DUF927); Region: DUF927; cl12098 158879000242 Protein kinase domain; Region: Pkinase; pfam00069 158879000243 Catalytic domain of Protein Kinases; Region: PKc; cd00180 158879000244 active site 158879000245 ATP binding site [chemical binding]; other site 158879000246 substrate binding site [chemical binding]; other site 158879000247 activation loop (A-loop); other site 158879000248 sporadically distributed protein, TIGR04141 family; Region: TIGR04141 158879000249 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 158879000250 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 158879000251 phosphate binding site [ion binding]; other site 158879000252 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 158879000253 Uncharacterized protein YrkD from Bacillus subtilis and related domains; this domain superfamily was previously known as part of DUF156; Region: BsYrkD-like_DUF156; cd10155 158879000254 putative homotetramer interface [polypeptide binding]; other site 158879000255 putative homodimer interface [polypeptide binding]; other site 158879000256 putative metal binding site [ion binding]; other site 158879000257 putative homodimer-homodimer interface [polypeptide binding]; other site 158879000258 putative allosteric switch controlling residues; other site 158879000259 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 158879000260 active site residue [active] 158879000261 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cl00436 158879000262 CPxP motif; other site 158879000263 DsrE/DsrF-like family; Region: DrsE; cl00672 158879000264 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 158879000265 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 158879000266 active site residue [active] 158879000267 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 158879000268 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 158879000269 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 158879000270 FMN binding site [chemical binding]; other site 158879000271 active site 158879000272 catalytic residues [active] 158879000273 substrate binding site [chemical binding]; other site 158879000274 TfoX N-terminal domain; Region: TfoX_N; cl01167 158879000275 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 158879000276 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158879000277 Catalytic domain of Bacillus cereus phosphatidylinositol-specific phospholipases C and similar proteins; Region: PI-PLCc_BcPLC_like; cd08586 158879000278 active site 158879000279 catalytic site [active] 158879000280 putative metal binding site [ion binding]; other site 158879000281 Protein of unknown function, DUF576; Region: DUF576; cl04553 158879000282 Protein of unknown function, DUF576; Region: DUF576; cl04553 158879000283 Protein of unknown function, DUF576; Region: DUF576; cl04553 158879000284 Protein of unknown function, DUF576; Region: DUF576; cl04553 158879000285 Protein of unknown function, DUF576; Region: DUF576; cl04553 158879000286 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 158879000287 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 158879000288 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 158879000289 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 158879000290 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 158879000291 metal binding site [ion binding]; metal-binding site 158879000292 dimer interface [polypeptide binding]; other site 158879000293 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 158879000294 Major Facilitator Superfamily; Region: MFS_1; pfam07690 158879000295 putative substrate translocation pore; other site 158879000296 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 158879000297 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 158879000298 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 158879000299 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 158879000300 PhoU domain; Region: PhoU; pfam01895 158879000301 Streptococcal 67 kDa myosin-cross-reactive antigen like family; Region: Strep_67kDa_ant; cl01939 158879000302 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 158879000303 EamA-like transporter family; Region: EamA; cl01037 158879000304 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 158879000305 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 158879000306 DNA-binding site [nucleotide binding]; DNA binding site 158879000307 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 158879000308 pyridoxal 5'-phosphate binding site [chemical binding]; other site 158879000309 homodimer interface [polypeptide binding]; other site 158879000310 catalytic residue [active] 158879000311 Protein of unknown function (DUF1648); Region: DUF1648; cl01712 158879000312 glycolate transporter; Provisional; Region: PRK09695 158879000313 L-lactate permease; Region: Lactate_perm; cl00701 158879000314 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 158879000315 B domain; Region: B; pfam02216 158879000316 B domain; Region: B; pfam02216 158879000317 B domain; Region: B; pfam02216 158879000318 B domain; Region: B; pfam02216 158879000319 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 158879000320 putative peptidoglycan binding site; other site 158879000321 Helix-turn-helix domains; Region: HTH; cl00088 158879000322 Helix-turn-helix domains; Region: HTH; cl00088 158879000323 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 158879000324 ABC-ATPase subunit interface; other site 158879000325 dimer interface [polypeptide binding]; other site 158879000326 putative PBP binding regions; other site 158879000327 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 158879000328 ABC-ATPase subunit interface; other site 158879000329 dimer interface [polypeptide binding]; other site 158879000330 putative PBP binding regions; other site 158879000331 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 158879000332 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 158879000333 siderophore binding site; other site 158879000334 2,3-diaminopropionate biosynthesis protein SbnA; Region: PLP_SbnA_fam; TIGR03945 158879000335 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 158879000336 dimer interface [polypeptide binding]; other site 158879000337 pyridoxal 5'-phosphate binding site [chemical binding]; other site 158879000338 catalytic residue [active] 158879000339 2,3-diaminopropionate biosynthesis protein SbnB; Region: dehyd_SbnB_fam; TIGR03944 158879000340 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879000341 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 158879000342 IucA / IucC family; Region: IucA_IucC; pfam04183 158879000343 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 158879000344 drug efflux system protein MdtG; Provisional; Region: PRK09874 158879000345 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 158879000346 putative substrate translocation pore; other site 158879000347 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 158879000348 IucA / IucC family; Region: IucA_IucC; pfam04183 158879000349 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 158879000350 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 158879000351 IucA / IucC family; Region: IucA_IucC; pfam04183 158879000352 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 158879000353 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 158879000354 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 158879000355 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 158879000356 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme PvsE; Region: PLPDE_III_PvsE_like; cd06843 158879000357 dimer interface [polypeptide binding]; other site 158879000358 active site 158879000359 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 158879000360 catalytic residues [active] 158879000361 substrate binding site [chemical binding]; other site 158879000362 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 158879000363 ParB-like nuclease domain; Region: ParBc; cl02129 158879000364 acetoin reductase; Validated; Region: PRK08643 158879000365 meso-2,3-butanediol dehydrogenase-like, classical (c) SDRs; Region: meso-BDH-like_SDR_c; cd05366 158879000366 NAD binding site [chemical binding]; other site 158879000367 homotetramer interface [polypeptide binding]; other site 158879000368 homodimer interface [polypeptide binding]; other site 158879000369 active site 158879000370 substrate binding site [chemical binding]; other site 158879000371 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879000372 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 158879000373 NAD(P) binding site [chemical binding]; other site 158879000374 active site 158879000375 Bacterial sugar transferase; Region: Bac_transf; cl00939 158879000376 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 158879000377 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 158879000378 putative ADP-binding pocket [chemical binding]; other site 158879000379 O-Antigen Polymerase; Region: Wzy_C; cl04850 158879000380 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 158879000381 MatE; Region: MatE; cl10513 158879000382 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 158879000383 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 158879000384 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 158879000385 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 158879000386 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 158879000387 DNA-binding site [nucleotide binding]; DNA binding site 158879000388 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 158879000389 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 158879000390 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 158879000391 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 158879000392 intersubunit interface [polypeptide binding]; other site 158879000393 active site 158879000394 catalytic residue [active] 158879000395 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 158879000396 Sulfatase; Region: Sulfatase; cl10460 158879000397 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 158879000398 dimer interface [polypeptide binding]; other site 158879000399 conserved gate region; other site 158879000400 putative PBP binding loops; other site 158879000401 ABC-ATPase subunit interface; other site 158879000402 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 158879000403 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 158879000404 dimer interface [polypeptide binding]; other site 158879000405 conserved gate region; other site 158879000406 ABC-ATPase subunit interface; other site 158879000407 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 158879000408 ABC-type phosphate/phosphonate transport system. Phosphonates are a class of organophosphorus compounds characterized by a chemically stable carbon-to-phosphorus (C-P) bond. Phosphonates are widespread among naturally occurring compounds in all...; Region: ABC_PhnC_transporter; cd03256 158879000409 Walker A/P-loop; other site 158879000410 ATP binding site [chemical binding]; other site 158879000411 Q-loop/lid; other site 158879000412 ABC transporter signature motif; other site 158879000413 Walker B; other site 158879000414 D-loop; other site 158879000415 H-loop/switch region; other site 158879000416 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 158879000417 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 158879000418 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 158879000419 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 158879000420 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 158879000421 active site 158879000422 metal binding site [ion binding]; metal-binding site 158879000423 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 158879000424 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 158879000425 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 158879000426 non-specific DNA binding site [nucleotide binding]; other site 158879000427 salt bridge; other site 158879000428 sequence-specific DNA binding site [nucleotide binding]; other site 158879000429 Domain of unknown function (DUF955); Region: DUF955; cl01076 158879000430 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 158879000431 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 158879000432 putative catalytic cysteine [active] 158879000433 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 158879000434 putative active site [active] 158879000435 metal binding site [ion binding]; metal-binding site 158879000436 Chain length determinant protein; Region: Wzz; cl01623 158879000437 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 158879000438 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158879000439 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 158879000440 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 158879000441 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 158879000442 NAD(P) binding site [chemical binding]; other site 158879000443 homodimer interface [polypeptide binding]; other site 158879000444 substrate binding site [chemical binding]; other site 158879000445 active site 158879000446 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 158879000447 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 158879000448 NAD(P) binding site [chemical binding]; other site 158879000449 homodimer interface [polypeptide binding]; other site 158879000450 substrate binding site [chemical binding]; other site 158879000451 active site 158879000452 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 158879000453 capsular polysaccharide assembling protein (CAPF) like, extended (e) SDRs; Region: CAPF_like_SDR_e; cd05261 158879000454 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 158879000455 putative NAD(P) binding site [chemical binding]; other site 158879000456 active site 158879000457 putative substrate binding site [chemical binding]; other site 158879000458 Cupin domain; Region: Cupin_2; cl09118 158879000459 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 158879000460 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 158879000461 active site 158879000462 homodimer interface [polypeptide binding]; other site 158879000463 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 158879000464 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 158879000465 trimer interface [polypeptide binding]; other site 158879000466 active site 158879000467 substrate binding site [chemical binding]; other site 158879000468 CoA binding site [chemical binding]; other site 158879000469 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 158879000470 O-Antigen ligase; Region: Wzy_C; cl04850 158879000471 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 158879000472 This family is most closely related to the GT1 family of glycosyltransferases. wbuB in E. coli is involved in the biosynthesis of the O26 O-antigen. It has been proposed to function as an N-acetyl-L-fucosamine (L-FucNAc) transferase; Region: GT1_wbuB_like; cd03794 158879000473 Bacterial sugar transferase; Region: Bac_transf; cl00939 158879000474 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 158879000475 putative NAD(P) binding site [chemical binding]; other site 158879000476 active site 158879000477 putative substrate binding site [chemical binding]; other site 158879000478 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 158879000479 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 158879000480 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879000481 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 158879000482 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 158879000483 active site 158879000484 homodimer interface [polypeptide binding]; other site 158879000485 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 158879000486 Protein of unknown function (DUF454); Region: DUF454; cl01063 158879000487 Uncharacterized Staphylococcus aureus AldA1 (SACOL0154) aldehyde dehydrogenase-like; Region: ALDH_StaphAldA1; cd07117 158879000488 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 158879000489 NAD(P) binding site [chemical binding]; other site 158879000490 catalytic residues [active] 158879000491 Cation efflux family; Region: Cation_efflux; cl00316 158879000492 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 158879000493 Protein of unknown function (DUF3125); Region: DUF3125; pfam11323 158879000494 Protein of unknown function (DUF4242); Region: DUF4242; pfam14026 158879000495 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 158879000496 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 158879000497 Walker A/P-loop; other site 158879000498 ATP binding site [chemical binding]; other site 158879000499 Q-loop/lid; other site 158879000500 ABC transporter signature motif; other site 158879000501 Walker B; other site 158879000502 D-loop; other site 158879000503 H-loop/switch region; other site 158879000504 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 158879000505 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 158879000506 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 158879000507 active site 158879000508 Uncharacterized conserved protein (DUF2294); Region: DUF2294; cl02390 158879000509 formate dehydrogenase; Provisional; Region: PRK07574 158879000510 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879000511 putative transporter; Provisional; Region: PRK10054 158879000512 Condensation domain; Region: Condensation; pfam00668 158879000513 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 158879000514 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 158879000515 Phosphopantetheine attachment site; Region: PP-binding; cl09936 158879000516 Condensation domain; Region: Condensation; pfam00668 158879000517 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 158879000518 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 158879000519 Phosphopantetheine attachment site; Region: PP-binding; cl09936 158879000520 thioester reductase domain; Region: Thioester-redct; TIGR01746 158879000521 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879000522 NAD(P) binding site [chemical binding]; other site 158879000523 active site 158879000524 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 158879000525 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 158879000526 Protein of unknown function (DUF1440); Region: DUF1440; cl01380 158879000527 AAK_NAGK-like: N-Acetyl-L-glutamate kinase (NAGK)-like . Included in this CD are the Escherichia coli and Pseudomonas aeruginosa type NAGKs which catalyze the phosphorylation of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine...; Region: AAK_NAGK-like; cd04238 158879000528 nucleotide binding site [chemical binding]; other site 158879000529 N-acetyl-L-glutamate binding site [chemical binding]; other site 158879000530 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 158879000531 heterotetramer interface [polypeptide binding]; other site 158879000532 active site pocket [active] 158879000533 cleavage site 158879000534 N-acetyl-gamma-glutamyl-phosphate reductase, common form; Region: argC; TIGR01850 158879000535 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879000536 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 158879000537 ornithine--oxo-acid transaminase; Provisional; Region: rocD; PRK04073 158879000538 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 158879000539 inhibitor-cofactor binding pocket; inhibition site 158879000540 pyridoxal 5'-phosphate binding site [chemical binding]; other site 158879000541 catalytic residue [active] 158879000542 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 158879000543 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 158879000544 catalytic triad [active] 158879000545 conserved cis-peptide bond; other site 158879000546 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 158879000547 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 158879000548 dimer interface [polypeptide binding]; other site 158879000549 PYR/PP interface [polypeptide binding]; other site 158879000550 TPP binding site [chemical binding]; other site 158879000551 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 158879000552 Thiamine pyrophosphate (TPP) family, PDC_IPDC subfamily, TPP-binding module; composed of proteins similar to pyruvate decarboxylase (PDC) and indolepyruvate decarboxylase (IPDC). PDC, a key enzyme in alcoholic fermentation, catalyzes the conversion of...; Region: TPP_PDC_IPDC; cd02005 158879000553 TPP-binding site [chemical binding]; other site 158879000554 dimer interface [polypeptide binding]; other site 158879000555 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 158879000556 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 158879000557 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 158879000558 active site turn [active] 158879000559 phosphorylation site [posttranslational modification] 158879000560 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 158879000561 HPr interaction site; other site 158879000562 glycerol kinase (GK) interaction site [polypeptide binding]; other site 158879000563 active site 158879000564 phosphorylation site [posttranslational modification] 158879000565 Bacterial protein of unknown function (DUF871); Region: DUF871; cl15404 158879000566 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 158879000567 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 158879000568 putative active site [active] 158879000569 PTS system N-acetylmuramic acid transporter subunits EIIBC; Reviewed; Region: murP; PRK09586 158879000570 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 158879000571 active site turn [active] 158879000572 phosphorylation site [posttranslational modification] 158879000573 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 158879000574 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 158879000575 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 158879000576 putative active site [active] 158879000577 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 158879000578 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 158879000579 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 158879000580 ATP binding site [chemical binding]; other site 158879000581 putative Mg++ binding site [ion binding]; other site 158879000582 Type I restriction and modification enzyme - subunit R C terminal; Region: EcoR124_C; pfam12008 158879000583 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 158879000584 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 158879000585 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 158879000586 Walker A/P-loop; other site 158879000587 ATP binding site [chemical binding]; other site 158879000588 Q-loop/lid; other site 158879000589 ABC transporter signature motif; other site 158879000590 Walker B; other site 158879000591 D-loop; other site 158879000592 H-loop/switch region; other site 158879000593 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 158879000594 FtsX-like permease family; Region: FtsX; pfam02687 158879000595 Integral membrane protein DUF95; Region: DUF95; cl00572 158879000596 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 158879000597 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 158879000598 Walker A/P-loop; other site 158879000599 ATP binding site [chemical binding]; other site 158879000600 Q-loop/lid; other site 158879000601 ABC transporter signature motif; other site 158879000602 Walker B; other site 158879000603 D-loop; other site 158879000604 H-loop/switch region; other site 158879000605 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 158879000606 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 158879000607 Walker A/P-loop; other site 158879000608 ATP binding site [chemical binding]; other site 158879000609 Q-loop/lid; other site 158879000610 ABC transporter signature motif; other site 158879000611 Walker B; other site 158879000612 D-loop; other site 158879000613 H-loop/switch region; other site 158879000614 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 158879000615 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 158879000616 Walker A/P-loop; other site 158879000617 ATP binding site [chemical binding]; other site 158879000618 Q-loop/lid; other site 158879000619 ABC transporter signature motif; other site 158879000620 Walker B; other site 158879000621 D-loop; other site 158879000622 H-loop/switch region; other site 158879000623 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 158879000624 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 158879000625 dimer interface [polypeptide binding]; other site 158879000626 conserved gate region; other site 158879000627 putative PBP binding loops; other site 158879000628 ABC-ATPase subunit interface; other site 158879000629 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 158879000630 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 158879000631 dimer interface [polypeptide binding]; other site 158879000632 conserved gate region; other site 158879000633 ABC-ATPase subunit interface; other site 158879000634 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 158879000635 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 158879000636 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 158879000637 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 158879000638 Protein of unknown function, DUF576; Region: DUF576; cl04553 158879000639 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 158879000640 Peptidase family M23; Region: Peptidase_M23; pfam01551 158879000641 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 158879000642 The N-terminal ATPase domain of the maltose transporter, MalK. ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two...; Region: ABC_MalK_N; cd03301 158879000643 Walker A/P-loop; other site 158879000644 ATP binding site [chemical binding]; other site 158879000645 Q-loop/lid; other site 158879000646 ABC transporter signature motif; other site 158879000647 Walker B; other site 158879000648 D-loop; other site 158879000649 H-loop/switch region; other site 158879000650 TOBE domain; Region: TOBE_2; cl01440 158879000651 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 158879000652 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 158879000653 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 158879000654 dimer interface [polypeptide binding]; other site 158879000655 conserved gate region; other site 158879000656 ABC-ATPase subunit interface; other site 158879000657 ABC-type maltose transport systems, permease component [Carbohydrate transport and metabolism]; Region: MalG; COG3833 158879000658 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 158879000659 dimer interface [polypeptide binding]; other site 158879000660 conserved gate region; other site 158879000661 putative PBP binding loops; other site 158879000662 ABC-ATPase subunit interface; other site 158879000663 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 158879000664 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879000665 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 158879000666 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 158879000667 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879000668 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 158879000669 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 158879000670 Isoprenylcysteine carboxyl methyltransferase (ICMT) family; Region: ICMT; cl00763 158879000671 sugar phosphate antiporter; Reviewed; Region: uhpT; PRK09556 158879000672 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 158879000673 putative substrate translocation pore; other site 158879000674 Response regulator receiver domain; Region: Response_reg; pfam00072 158879000675 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 158879000676 active site 158879000677 phosphorylation site [posttranslational modification] 158879000678 intermolecular recognition site; other site 158879000679 dimerization interface [polypeptide binding]; other site 158879000680 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 158879000681 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 158879000682 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 158879000683 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 158879000684 Histidine kinase; Region: His_kinase; pfam06580 158879000685 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 158879000686 ATP binding site [chemical binding]; other site 158879000687 Mg2+ binding site [ion binding]; other site 158879000688 G-X-G motif; other site 158879000689 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 158879000690 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 158879000691 Pyruvate formate lyase 1; Region: PFL1; cd01678 158879000692 coenzyme A binding site [chemical binding]; other site 158879000693 active site 158879000694 catalytic residues [active] 158879000695 glycine loop; other site 158879000696 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 158879000697 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 158879000698 FeS/SAM binding site; other site 158879000699 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; cl01974 158879000700 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 158879000701 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 158879000702 putative active site [active] 158879000703 catalytic site [active] 158879000704 putative metal binding site [ion binding]; other site 158879000705 Staphylococcal complement inhibitor SCIN; Region: CompInhib_SCIN; pfam11546 158879000706 Staphylococcus aureus coagulase; Region: Coagulase; pfam08764 158879000707 Staphylocoagulase repeat; Region: Staphylcoagulse; pfam04022 158879000708 Staphylocoagulase repeat; Region: Staphylcoagulse; pfam04022 158879000709 Staphylocoagulase repeat; Region: Staphylcoagulse; pfam04022 158879000710 Staphylocoagulase repeat; Region: Staphylcoagulse; pfam04022 158879000711 Staphylocoagulase repeat; Region: Staphylcoagulse; pfam04022 158879000712 Staphylocoagulase repeat; Region: Staphylcoagulse; pfam04022 158879000713 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 158879000714 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 158879000715 dimer interface [polypeptide binding]; other site 158879000716 active site 158879000717 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 158879000718 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 158879000719 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 158879000720 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 158879000721 substrate binding site [chemical binding]; other site 158879000722 oxyanion hole (OAH) forming residues; other site 158879000723 trimer interface [polypeptide binding]; other site 158879000724 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 158879000725 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 158879000726 active site 158879000727 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 158879000728 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 158879000729 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 158879000730 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 158879000731 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 158879000732 Putative membrane peptidase family (DUF2324); Region: DUF2324; cl01810 158879000733 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_3; cd08490 158879000734 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 158879000735 Protein of unknown function, DUF488; Region: DUF488; cl01246 158879000736 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 158879000737 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 158879000738 heme-binding site [chemical binding]; other site 158879000739 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 158879000740 FAD binding pocket [chemical binding]; other site 158879000741 FAD binding motif [chemical binding]; other site 158879000742 phosphate binding motif [ion binding]; other site 158879000743 beta-alpha-beta structure motif; other site 158879000744 NAD binding pocket [chemical binding]; other site 158879000745 Heme binding pocket [chemical binding]; other site 158879000746 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 158879000747 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 158879000748 tetramer (dimer of dimers) interface [polypeptide binding]; other site 158879000749 NAD binding site [chemical binding]; other site 158879000750 dimer interface [polypeptide binding]; other site 158879000751 substrate binding site [chemical binding]; other site 158879000752 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 158879000753 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 158879000754 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 158879000755 active site turn [active] 158879000756 phosphorylation site [posttranslational modification] 158879000757 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 158879000758 active site 158879000759 tetramer interface [polypeptide binding]; other site 158879000760 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 158879000761 Helix-turn-helix domains; Region: HTH; cl00088 158879000762 PRD domain; Region: PRD; cl15445 158879000763 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 158879000764 P-loop; other site 158879000765 active site 158879000766 phosphorylation site [posttranslational modification] 158879000767 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 158879000768 active site 158879000769 phosphorylation site [posttranslational modification] 158879000770 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 158879000771 active site 158879000772 phosphorylation site [posttranslational modification] 158879000773 PTS_IIB_galactitol: subunit IIB of enzyme II (EII) of the galactitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a galactitol-specific permease with two cytoplasmic domains (IIA and IIB) and a...; Region: PTS_IIB_galactitol; cd05566 158879000774 P-loop; other site 158879000775 active site 158879000776 phosphorylation site [posttranslational modification] 158879000777 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 158879000778 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 158879000779 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH4; cd08258 158879000780 putative NAD(P) binding site [chemical binding]; other site 158879000781 catalytic Zn binding site [ion binding]; other site 158879000782 structural Zn binding site [ion binding]; other site 158879000783 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 158879000784 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 158879000785 putative NAD(P) binding site [chemical binding]; other site 158879000786 catalytic Zn binding site [ion binding]; other site 158879000787 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 158879000788 substrate binding site; other site 158879000789 dimer interface; other site 158879000790 ribitol-5-phosphate dehydrogenase; Region: ribitol-5-phosphate_DH; cd08237 158879000791 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 158879000792 putative NAD(P) binding site [chemical binding]; other site 158879000793 putative catalytic Zn binding site [ion binding]; other site 158879000794 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 158879000795 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 158879000796 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 158879000797 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 158879000798 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 158879000799 substrate binding site; other site 158879000800 dimer interface; other site 158879000801 ribitol-5-phosphate dehydrogenase; Region: ribitol-5-phosphate_DH; cd08237 158879000802 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 158879000803 putative NAD(P) binding site [chemical binding]; other site 158879000804 putative catalytic Zn binding site [ion binding]; other site 158879000805 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 158879000806 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 158879000807 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 158879000808 active site 158879000809 cell wall biosynthesis protein ScdA; Provisional; Region: PRK13276 158879000810 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 158879000811 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 158879000812 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 158879000813 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 158879000814 Histidine kinase; Region: His_kinase; pfam06580 158879000815 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 158879000816 two-component response regulator; Provisional; Region: PRK14084 158879000817 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 158879000818 active site 158879000819 phosphorylation site [posttranslational modification] 158879000820 intermolecular recognition site; other site 158879000821 dimerization interface [polypeptide binding]; other site 158879000822 LytTr DNA-binding domain; Region: LytTR; cl04498 158879000823 LrgA family; Region: LrgA; cl00608 158879000824 LrgB-like family; Region: LrgB; cl00596 158879000825 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 158879000826 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 158879000827 DNA-binding site [nucleotide binding]; DNA binding site 158879000828 UTRA domain; Region: UTRA; cl01230 158879000829 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cl00164 158879000830 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cl00162 158879000831 HPr interaction site; other site 158879000832 glycerol kinase (GK) interaction site [polypeptide binding]; other site 158879000833 active site 158879000834 phosphorylation site [posttranslational modification] 158879000835 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 158879000836 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 158879000837 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 158879000838 S-adenosylmethionine binding site [chemical binding]; other site 158879000839 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 158879000840 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 158879000841 substrate binding site [chemical binding]; other site 158879000842 dimer interface [polypeptide binding]; other site 158879000843 ATP binding site [chemical binding]; other site 158879000844 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 158879000845 Sugar transport protein; Region: Sugar_transport; pfam06800 158879000846 Transcriptional regulators [Transcription]; Region: PurR; COG1609 158879000847 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 158879000848 DNA binding site [nucleotide binding] 158879000849 domain linker motif; other site 158879000850 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 158879000851 dimerization interface [polypeptide binding]; other site 158879000852 ligand binding site [chemical binding]; other site 158879000853 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 158879000854 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 158879000855 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 158879000856 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 158879000857 active site 158879000858 Surface antigen [General function prediction only]; Region: COG3942 158879000859 Peptidase family M23; Region: Peptidase_M23; pfam01551 158879000860 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158879000861 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 158879000862 Walker A/P-loop; other site 158879000863 ATP binding site [chemical binding]; other site 158879000864 Q-loop/lid; other site 158879000865 ABC transporter signature motif; other site 158879000866 Walker B; other site 158879000867 D-loop; other site 158879000868 H-loop/switch region; other site 158879000869 Surface antigen [General function prediction only]; Region: COG3942 158879000870 NlpC/P60 family; Region: NLPC_P60; cl11438 158879000871 Proteins of 100 residues with WXG; Region: WXG100; cl02005 158879000872 Predicted membrane protein [Function unknown]; Region: COG1511 158879000873 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 158879000874 ABC-2 type transporter; Region: ABC2_membrane; cl11417 158879000875 Firmicute eSAT-6 protein secretion system EssA; Region: EssA; cl11266 158879000876 YukD; Region: YukD; cl11566 158879000877 Predicted membrane protein essB; Region: essB; cl01868 158879000878 DNA transporter; Region: FtsK_SpoIIIE_N; pfam12538 158879000879 type VII secretion protein EssC, C-terminal domain; Region: T7_EssCb_Firm; TIGR03928 158879000880 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158879000881 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158879000882 Virulence factor EsxB; Region: EsxB; pfam10663 158879000883 Uncharacterized conserved protein [Function unknown]; Region: COG5444 158879000884 Protein of unknown function, DUF600; Region: DUF600; cl04640 158879000885 Protein of unknown function, DUF600; Region: DUF600; cl04640 158879000886 Protein of unknown function, DUF600; Region: DUF600; cl04640 158879000887 Protein of unknown function, DUF600; Region: DUF600; cl04640 158879000888 Protein of unknown function, DUF600; Region: DUF600; cl04640 158879000889 Protein of unknown function, DUF600; Region: DUF600; cl04640 158879000890 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 158879000891 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 158879000892 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 158879000893 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 158879000894 FtsX-like permease family; Region: FtsX; pfam02687 158879000895 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 158879000896 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 158879000897 Walker A/P-loop; other site 158879000898 ATP binding site [chemical binding]; other site 158879000899 Q-loop/lid; other site 158879000900 ABC transporter signature motif; other site 158879000901 Walker B; other site 158879000902 D-loop; other site 158879000903 H-loop/switch region; other site 158879000904 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 158879000905 Helix-turn-helix domains; Region: HTH; cl00088 158879000906 YeiC-like sugar kinase. Found in eukaryotes and bacteria, YeiC-like kinase is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time; Region: YeiC_kinase_like; cd01941 158879000907 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 158879000908 ATP binding site [chemical binding]; other site 158879000909 substrate binding site [chemical binding]; other site 158879000910 Indigoidine synthase A like protein; Region: Indigoidine_A; cl00983 158879000911 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 158879000912 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 158879000913 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 158879000914 Sodium:solute symporter family; Region: SSF; cl00456 158879000915 putative transporter; Provisional; Region: PRK10484 158879000916 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 158879000917 N-acetylneuraminate lyase; Region: nanA; TIGR00683 158879000918 inhibitor site; inhibition site 158879000919 active site 158879000920 dimer interface [polypeptide binding]; other site 158879000921 catalytic residue [active] 158879000922 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 158879000923 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 158879000924 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 158879000925 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 158879000926 putative active site [active] 158879000927 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 158879000928 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family of...; Region: NanE; cd04729 158879000929 putative active site cavity [active] 158879000930 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 158879000931 Nucleoside recognition; Region: Gate; cl00486 158879000932 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 158879000933 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 158879000934 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 158879000935 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 158879000936 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 158879000937 Old yellow enzyme (OYE)-related FMN binding domain, group 4. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_4_FMN; cd04735 158879000938 putative active site [active] 158879000939 putative FMN binding site [chemical binding]; other site 158879000940 putative substrate binding site [chemical binding]; other site 158879000941 putative catalytic residue [active] 158879000942 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 158879000943 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 158879000944 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 158879000945 lipoyl attachment site [posttranslational modification]; other site 158879000946 Replication protein C N-terminal domain; Region: RP-C; pfam03428 158879000947 Macro domain, Unknown family 1. 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 polymerases)...; Region: Macro_1; cd02906 158879000948 putative ADP-ribose binding site [chemical binding]; other site 158879000949 SIR2 superfamily of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+; Region: SIR2; cd00296 158879000950 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 158879000951 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 158879000952 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 158879000953 aldehyde reductase, extended (e) SDRs; Region: AR_SDR_e; cd05227 158879000954 cinnamoyl-CoA reductase; Region: PLN02214 158879000955 NADP binding site [chemical binding]; other site 158879000956 putative substrate binding site [chemical binding]; other site 158879000957 active site 158879000958 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 158879000959 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 158879000960 P-loop; other site 158879000961 active site 158879000962 phosphorylation site [posttranslational modification] 158879000963 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 158879000964 active site 158879000965 phosphorylation site [posttranslational modification] 158879000966 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 158879000967 Helix-turn-helix domains; Region: HTH; cl00088 158879000968 Helix-turn-helix domains; Region: HTH; cl00088 158879000969 PRD domain; Region: PRD; cl15445 158879000970 PRD domain; Region: PRD; cl15445 158879000971 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 158879000972 P-loop; other site 158879000973 active site 158879000974 phosphorylation site [posttranslational modification] 158879000975 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 158879000976 active site 158879000977 phosphorylation site [posttranslational modification] 158879000978 Transcriptional regulators [Transcription]; Region: MarR; COG1846 158879000979 Helix-turn-helix domains; Region: HTH; cl00088 158879000980 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 158879000981 MatE; Region: MatE; cl10513 158879000982 MatE; Region: MatE; cl10513 158879000983 MepB protein; Region: MepB; cl01985 158879000984 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 158879000985 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 158879000986 putative substrate translocation pore; other site 158879000987 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 158879000988 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 158879000989 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 158879000990 Zn binding site [ion binding]; other site 158879000991 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 158879000992 Zn binding site [ion binding]; other site 158879000993 putative luciferase-like monooxygenase, FMN-dependent, CE1758 family; Region: LLM_CE1758_fam; TIGR04036 158879000994 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 158879000995 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 158879000996 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 158879000997 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 158879000998 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 158879000999 Imelysin; Region: Peptidase_M75; cl09159 158879001000 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 158879001001 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 158879001002 Iron permease FTR1 family; Region: FTR1; cl00475 158879001003 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 158879001004 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 158879001005 Protein of unknown function (DUF1398); Region: DUF1398; cl11576 158879001006 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 158879001007 non-specific DNA binding site [nucleotide binding]; other site 158879001008 salt bridge; other site 158879001009 sequence-specific DNA binding site [nucleotide binding]; other site 158879001010 Protein of unknown function (DUF3169); Region: DUF3169; pfam11368 158879001011 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 158879001012 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 158879001013 Walker A/P-loop; other site 158879001014 ATP binding site [chemical binding]; other site 158879001015 Q-loop/lid; other site 158879001016 ABC transporter signature motif; other site 158879001017 Walker B; other site 158879001018 D-loop; other site 158879001019 H-loop/switch region; other site 158879001020 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 158879001021 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 158879001022 putative acyltransferase; Provisional; Region: PRK05790 158879001023 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 158879001024 dimer interface [polypeptide binding]; other site 158879001025 active site 158879001026 Putative cyclase; Region: Cyclase; cl00814 158879001027 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 158879001028 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Region: met_syn_B12ind; TIGR01371 158879001029 THF binding site; other site 158879001030 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 158879001031 substrate binding site [chemical binding]; other site 158879001032 THF binding site; other site 158879001033 zinc-binding site [ion binding]; other site 158879001034 bifunctional homocysteine S-methyltransferase/5,10-methylenetetrahydrofolate reductase protein; Reviewed; Region: PRK08645 158879001035 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 158879001036 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 158879001037 FAD binding site [chemical binding]; other site 158879001038 cystathionine beta-lyase; Provisional; Region: PRK08064 158879001039 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 158879001040 homodimer interface [polypeptide binding]; other site 158879001041 substrate-cofactor binding pocket; other site 158879001042 pyridoxal 5'-phosphate binding site [chemical binding]; other site 158879001043 catalytic residue [active] 158879001044 cystathionine gamma-synthase; Reviewed; Region: PRK08247 158879001045 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 158879001046 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 158879001047 catalytic residue [active] 158879001048 ParB-like partition proteins; Region: parB_part; TIGR00180 158879001049 ParB-like nuclease domain; Region: ParBc; cl02129 158879001050 Mechanosensitive ion channel; Region: MS_channel; pfam00924 158879001051 Bacterial protein of unknown function (DUF951); Region: DUF951; cl01864 158879001052 GTP-binding protein YchF; Reviewed; Region: PRK09601 158879001053 YchF subfamily. YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated...; Region: YchF; cd01900 158879001054 G1 box; other site 158879001055 GTP/Mg2+ binding site [chemical binding]; other site 158879001056 Switch I region; other site 158879001057 G2 box; other site 158879001058 Switch II region; other site 158879001059 G3 box; other site 158879001060 G4 box; other site 158879001061 G5 box; other site 158879001062 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 158879001063 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 158879001064 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 158879001065 dimer interface [polypeptide binding]; other site 158879001066 ssDNA binding site [nucleotide binding]; other site 158879001067 tetramer (dimer of dimers) interface [polypeptide binding]; other site 158879001068 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 158879001069 Abi-like protein; Region: Abi_2; cl01988 158879001070 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 158879001071 DNA binding site [nucleotide binding] 158879001072 active site 158879001073 Int/Topo IB signature motif; other site 158879001074 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 158879001075 Protein of unknown function (DUF1093); Region: DUF1093; cl02185 158879001076 Predicted membrane protein [Function unknown]; Region: COG3212 158879001077 Peptidase propeptide and YPEB domain; Region: PepSY; cl15480 158879001078 Peptidase propeptide and YPEB domain; Region: PepSY; cl15480 158879001079 Helix-turn-helix domains; Region: HTH; cl00088 158879001080 non-specific DNA binding site [nucleotide binding]; other site 158879001081 salt bridge; other site 158879001082 sequence-specific DNA binding site [nucleotide binding]; other site 158879001083 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 158879001084 catalytic core [active] 158879001085 extracellular lipase, Pla-1/cef family; Region: lipase_Pla1_cef; TIGR03502 158879001086 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 158879001087 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 158879001088 catalytic residue [active] 158879001089 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 158879001090 catalytic residues [active] 158879001091 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879001092 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879001093 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879001094 peroxiredoxin; Region: AhpC; TIGR03137 158879001095 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 158879001096 dimer interface [polypeptide binding]; other site 158879001097 decamer (pentamer of dimers) interface [polypeptide binding]; other site 158879001098 catalytic triad [active] 158879001099 peroxidatic and resolving cysteines [active] 158879001100 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH as...; Region: NfsA_FRP; cd02146 158879001101 dimer interface [polypeptide binding]; other site 158879001102 FMN binding site [chemical binding]; other site 158879001103 NADPH bind site [chemical binding]; other site 158879001104 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 158879001105 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 158879001106 Transposase; Region: DDE_Tnp_ISL3; pfam01610 158879001107 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 158879001108 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 158879001109 xanthine permease; Region: pbuX; TIGR03173 158879001110 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 158879001111 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 158879001112 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 158879001113 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 158879001114 active site 158879001115 GMP synthase; Reviewed; Region: guaA; PRK00074 158879001116 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 158879001117 AMP/PPi binding site [chemical binding]; other site 158879001118 candidate oxyanion hole; other site 158879001119 catalytic triad [active] 158879001120 potential glutamine specificity residues [chemical binding]; other site 158879001121 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 158879001122 ATP Binding subdomain [chemical binding]; other site 158879001123 Ligand Binding sites [chemical binding]; other site 158879001124 Dimerization subdomain; other site 158879001125 Pathogenicity island SaPIn2 158879001126 PemK-like protein; Region: PemK; cl00995 158879001127 Helix-turn-helix domains; Region: HTH; cl00088 158879001128 Protein of unknown function (DUF1304); Region: DUF1304; cl01533 158879001129 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 158879001130 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 158879001131 NADP binding site [chemical binding]; other site 158879001132 superantigen-like protein; Reviewed; Region: PRK13037 158879001133 Domain of unknown function (DUF1954); Region: DUF1954; pfam09199 158879001134 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 158879001135 superantigen-like protein; Reviewed; Region: PRK13041 158879001136 Domain of unknown function (DUF1954); Region: DUF1954; pfam09199 158879001137 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 158879001138 superantigen-like protein; Reviewed; Region: PRK13335 158879001139 Domain of unknown function (DUF1954); Region: DUF1954; pfam09199 158879001140 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 158879001141 superantigen-like protein; Reviewed; Region: PRK13042 158879001142 Mucin-like glycoprotein; Region: Mucin; pfam01456 158879001143 Domain of unknown function (DUF1954); Region: DUF1954; pfam09199 158879001144 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 158879001145 superantigen-like protein 5; Reviewed; Region: PRK13035 158879001146 Domain of unknown function (DUF1954); Region: DUF1954; pfam09199 158879001147 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 158879001148 superantigen-like protein 7; Reviewed; Region: PRK13346 158879001149 Domain of unknown function (DUF1954); Region: DUF1954; pfam09199 158879001150 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 158879001151 superantigen-like protein; Reviewed; Region: PRK13039 158879001152 Domain of unknown function (DUF1954); Region: DUF1954; pfam09199 158879001153 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 158879001154 superantigen-like protein; Reviewed; Region: PRK13345 158879001155 Domain of unknown function (DUF1954); Region: DUF1954; pfam09199 158879001156 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 158879001157 superantigen-like protein 5; Reviewed; Region: PRK13035 158879001158 Domain of unknown function (DUF1954); Region: DUF1954; pfam09199 158879001159 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 158879001160 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 158879001161 HsdM N-terminal domain; Region: HsdM_N; pfam12161 158879001162 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879001163 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 158879001164 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 158879001165 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 158879001166 superantigen-like protein; Reviewed; Region: PRK13036 158879001167 Domain of unknown function (DUF1954); Region: DUF1954; pfam09199 158879001168 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 158879001169 Protein of unknown function, DUF576; Region: DUF576; cl04553 158879001170 Protein of unknown function, DUF576; Region: DUF576; cl04553 158879001171 Protein of unknown function, DUF576; Region: DUF576; cl04553 158879001172 Protein of unknown function, DUF576; Region: DUF576; cl04553 158879001173 Protein of unknown function, DUF576; Region: DUF576; cl04553 158879001174 Protein of unknown function, DUF576; Region: DUF576; cl04553 158879001175 Protein of unknown function, DUF576; Region: DUF576; cl04553 158879001176 Protein of unknown function, DUF576; Region: DUF576; cl04553 158879001177 Protein of unknown function, DUF576; Region: DUF576; cl04553 158879001178 Protein of unknown function, DUF576; Region: DUF576; cl04553 158879001179 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 158879001180 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 158879001181 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158879001182 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 158879001183 NADH dehydrogenase subunit 5; Validated; Region: PRK08601 158879001184 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 158879001185 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3002 158879001186 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 158879001187 Uncharacterized conserved protein (DUF2294); Region: DUF2294; cl02390 158879001188 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 158879001189 active site 158879001190 Esterase/lipase [General function prediction only]; Region: COG1647 158879001191 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 158879001192 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 158879001193 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 158879001194 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 158879001195 dimer interface [polypeptide binding]; other site 158879001196 pyridoxal 5'-phosphate binding site [chemical binding]; other site 158879001197 catalytic residue [active] 158879001198 cystathionine beta-lyase; Provisional; Region: PRK07671 158879001199 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 158879001200 homodimer interface [polypeptide binding]; other site 158879001201 substrate-cofactor binding pocket; other site 158879001202 pyridoxal 5'-phosphate binding site [chemical binding]; other site 158879001203 catalytic residue [active] 158879001204 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 158879001205 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 158879001206 Walker A/P-loop; other site 158879001207 ATP binding site [chemical binding]; other site 158879001208 Q-loop/lid; other site 158879001209 ABC transporter signature motif; other site 158879001210 Walker B; other site 158879001211 D-loop; other site 158879001212 H-loop/switch region; other site 158879001213 NIL domain; Region: NIL; cl09633 158879001214 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 158879001215 dimer interface [polypeptide binding]; other site 158879001216 conserved gate region; other site 158879001217 ABC-ATPase subunit interface; other site 158879001218 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 158879001219 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 158879001220 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 158879001221 putative peptidoglycan binding site; other site 158879001222 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 158879001223 putative peptidoglycan binding site; other site 158879001224 NlpC/P60 family; Region: NLPC_P60; cl11438 158879001225 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_31; cd04690 158879001226 nudix motif; other site 158879001227 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 158879001228 YibE/F-like protein; Region: YibE_F; cl02259 158879001229 YibE/F-like protein; Region: YibE_F; cl02259 158879001230 Helix-turn-helix domains; Region: HTH; cl00088 158879001231 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 158879001232 dimerization interface [polypeptide binding]; other site 158879001233 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 158879001234 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 158879001235 active site 158879001236 dimer interface [polypeptide binding]; other site 158879001237 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 158879001238 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 158879001239 active site 158879001240 FMN binding site [chemical binding]; other site 158879001241 substrate binding site [chemical binding]; other site 158879001242 3Fe-4S cluster binding site [ion binding]; other site 158879001243 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 158879001244 domain interface; other site 158879001245 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 158879001246 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 158879001247 NAD(P) binding site [chemical binding]; other site 158879001248 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 158879001249 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 158879001250 active site turn [active] 158879001251 phosphorylation site [posttranslational modification] 158879001252 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 158879001253 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 158879001254 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 158879001255 Ca binding site [ion binding]; other site 158879001256 active site 158879001257 catalytic site [active] 158879001258 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 158879001259 DNA-binding site [nucleotide binding]; DNA binding site 158879001260 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 158879001261 UTRA domain; Region: UTRA; cl01230 158879001262 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 158879001263 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 158879001264 Coenzyme A binding pocket [chemical binding]; other site 158879001265 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 158879001266 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 158879001267 Walker A motif; other site 158879001268 ATP binding site [chemical binding]; other site 158879001269 Walker B motif; other site 158879001270 arginine finger; other site 158879001271 Uncharacterised BCR, YbaB family COG0718; Region: DUF149; cl00494 158879001272 recombination protein RecR; Reviewed; Region: recR; PRK00076 158879001273 Helix-hairpin-helix DNA-binding motif class 1; Region: HhH1; smart00278 158879001274 RecR protein; Region: RecR; pfam02132 158879001275 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 158879001276 putative active site [active] 158879001277 putative metal-binding site [ion binding]; other site 158879001278 tetramer interface [polypeptide binding]; other site 158879001279 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 158879001280 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 158879001281 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 158879001282 catalytic residue [active] 158879001283 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 158879001284 thymidylate kinase; Validated; Region: tmk; PRK00698 158879001285 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 158879001286 TMP-binding site; other site 158879001287 ATP-binding site [chemical binding]; other site 158879001288 Nitrogen regulatory protein P-II; Region: P-II; cl00412 158879001289 DNA polymerase III subunit delta'; Validated; Region: PRK08058 158879001290 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158879001291 PSP1 C-terminal conserved region; Region: PSP1; cl00770 158879001292 TSC-22/dip/bun family; Region: TSC22; cl01853 158879001293 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 158879001294 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 158879001295 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 158879001296 GIY-YIG motif/motif A; other site 158879001297 putative active site [active] 158879001298 putative metal binding site [ion binding]; other site 158879001299 Predicted methyltransferases [General function prediction only]; Region: COG0313 158879001300 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 158879001301 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 158879001302 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 158879001303 active site 158879001304 HIGH motif; other site 158879001305 KMSKS motif; other site 158879001306 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 158879001307 tRNA binding surface [nucleotide binding]; other site 158879001308 anticodon binding site; other site 158879001309 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 158879001310 dimer interface [polypeptide binding]; other site 158879001311 putative tRNA-binding site [nucleotide binding]; other site 158879001312 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 158879001313 active site 158879001314 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 158879001315 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low...; Region: TOPRIM_RNase_M5_like; cd01027 158879001316 putative active site [active] 158879001317 putative metal binding site [ion binding]; other site 158879001318 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 158879001319 Protein of unknown function (DUF1021); Region: DUF1021; cl01852 158879001320 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 158879001321 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 158879001322 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 158879001323 pur operon repressor; Provisional; Region: PRK09213 158879001324 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 158879001325 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 158879001326 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 158879001327 homotrimer interaction site [polypeptide binding]; other site 158879001328 putative active site [active] 158879001329 SpoVG; Region: SpoVG; cl00915 158879001330 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 158879001331 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 158879001332 Substrate binding site; other site 158879001333 Mg++ binding site; other site 158879001334 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 158879001335 active site 158879001336 substrate binding site [chemical binding]; other site 158879001337 CoA binding site [chemical binding]; other site 158879001338 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK02269 158879001339 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 158879001340 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 158879001341 5S rRNA interface [nucleotide binding]; other site 158879001342 CTC domain interface [polypeptide binding]; other site 158879001343 L16 interface [polypeptide binding]; other site 158879001344 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 158879001345 putative active site [active] 158879001346 catalytic residue [active] 158879001347 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 158879001348 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 158879001349 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 158879001350 ATP binding site [chemical binding]; other site 158879001351 putative Mg++ binding site [ion binding]; other site 158879001352 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 158879001353 nucleotide binding region [chemical binding]; other site 158879001354 ATP-binding site [chemical binding]; other site 158879001355 TRCF domain; Region: TRCF; cl04088 158879001356 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 158879001357 MatE; Region: MatE; cl10513 158879001358 Protein containing tetrapyrrole methyltransferase domain and MazG-like (predicted pyrophosphatase) domain [General function prediction only]; Region: COG3956 158879001359 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 158879001360 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 158879001361 S4/Hsp/ tRNA synthetase RNA-binding domain; The domain surface is populated by conserved, charged residues that define a likely RNA-binding site; Found in stress proteins, ribosomal proteins and tRNA synthetases; This may imply a hitherto unrecognized...; Region: S4; cl09940 158879001362 Septum formation initiator; Region: DivIC; cl11433 158879001363 hypothetical protein; Provisional; Region: PRK08582 158879001364 S1_RPS1_repeat_hs4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_hs4; cd05692 158879001365 RNA binding site [nucleotide binding]; other site 158879001366 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 158879001367 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 158879001368 Ligand Binding Site [chemical binding]; other site 158879001369 B3/4 domain; Region: B3_4; cl11458 158879001370 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 158879001371 FtsH Extracellular; Region: FtsH_ext; pfam06480 158879001372 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 158879001373 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 158879001374 Walker A motif; other site 158879001375 ATP binding site [chemical binding]; other site 158879001376 Walker B motif; other site 158879001377 arginine finger; other site 158879001378 Peptidase family M41; Region: Peptidase_M41; pfam01434 158879001379 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 158879001380 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 158879001381 dimerization interface [polypeptide binding]; other site 158879001382 domain crossover interface; other site 158879001383 redox-dependent activation switch; other site 158879001384 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 158879001385 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 158879001386 dimer interface [polypeptide binding]; other site 158879001387 pyridoxal 5'-phosphate binding site [chemical binding]; other site 158879001388 catalytic residue [active] 158879001389 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 158879001390 dihydropteroate synthase; Region: DHPS; TIGR01496 158879001391 substrate binding pocket [chemical binding]; other site 158879001392 dimer interface [polypeptide binding]; other site 158879001393 inhibitor binding site; inhibition site 158879001394 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 158879001395 homooctamer interface [polypeptide binding]; other site 158879001396 active site 158879001397 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 158879001398 catalytic center binding site [active] 158879001399 ATP binding site [chemical binding]; other site 158879001400 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 158879001401 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 158879001402 dimer interface [polypeptide binding]; other site 158879001403 putative anticodon binding site; other site 158879001404 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 158879001405 motif 1; other site 158879001406 active site 158879001407 motif 2; other site 158879001408 motif 3; other site 158879001409 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 158879001410 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 158879001411 DNA-binding site [nucleotide binding]; DNA binding site 158879001412 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 158879001413 pyridoxal 5'-phosphate binding site [chemical binding]; other site 158879001414 homodimer interface [polypeptide binding]; other site 158879001415 catalytic residue [active] 158879001416 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 158879001417 PdxS is a subunit of the pyridoxal 5'-phosphate (PLP) synthase, an important enzyme in deoxyxylulose 5-phosphate (DXP)-independent pathway for de novo biosynthesis of PLP, present in some eubacteria, in archaea, fungi, plants, plasmodia, and some...; Region: pdxS; cd04727 158879001418 active site 158879001419 multimer interface [polypeptide binding]; other site 158879001420 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 158879001421 predicted active site [active] 158879001422 catalytic triad [active] 158879001423 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 158879001424 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 158879001425 Nucleoside recognition; Region: Gate; cl00486 158879001426 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 158879001427 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; cl01850 158879001428 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 158879001429 UvrB/uvrC motif; Region: UVR; pfam02151 158879001430 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 158879001431 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 158879001432 ADP binding site [chemical binding]; other site 158879001433 phosphagen binding site; other site 158879001434 substrate specificity loop; other site 158879001435 Clp protease ATP binding subunit; Region: clpC; CHL00095 158879001436 Clp amino terminal domain; Region: Clp_N; pfam02861 158879001437 Clp amino terminal domain; Region: Clp_N; pfam02861 158879001438 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 158879001439 Walker A motif; other site 158879001440 ATP binding site [chemical binding]; other site 158879001441 Walker B motif; other site 158879001442 arginine finger; other site 158879001443 UvrB/uvrC motif; Region: UVR; pfam02151 158879001444 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 158879001445 Walker A motif; other site 158879001446 ATP binding site [chemical binding]; other site 158879001447 Walker B motif; other site 158879001448 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 158879001449 DNA repair protein RadA; Provisional; Region: PRK11823 158879001450 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 158879001451 Walker A motif/ATP binding site; other site 158879001452 ATP binding site [chemical binding]; other site 158879001453 Walker B motif; other site 158879001454 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 158879001455 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 158879001456 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 158879001457 putative active site [active] 158879001458 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 158879001459 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 158879001460 active site 158879001461 HIGH motif; other site 158879001462 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 158879001463 active site 158879001464 KMSKS motif; other site 158879001465 serine O-acetyltransferase; Region: cysE; TIGR01172 158879001466 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 158879001467 trimer interface [polypeptide binding]; other site 158879001468 active site 158879001469 substrate binding site [chemical binding]; other site 158879001470 CoA binding site [chemical binding]; other site 158879001471 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 158879001472 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 158879001473 active site 158879001474 HIGH motif; other site 158879001475 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 158879001476 KMSKS motif; other site 158879001477 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 158879001478 tRNA binding surface [nucleotide binding]; other site 158879001479 anticodon binding site; other site 158879001480 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; cl00258 158879001481 active site 158879001482 dimerization interface [polypeptide binding]; other site 158879001483 metal binding site [ion binding]; metal-binding site 158879001484 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 158879001485 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 158879001486 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 158879001487 YacP-like NYN domain; Region: NYN_YacP; cl01491 158879001488 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 158879001489 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 158879001490 Helix-turn-helix domains; Region: HTH; cl00088 158879001491 DNA binding residues [nucleotide binding] 158879001492 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 158879001493 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 158879001494 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 158879001495 putative homodimer interface [polypeptide binding]; other site 158879001496 KOW motif; Region: KOW; cl00354 158879001497 similar to hypothetical protein 158879001498 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 158879001499 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 158879001500 23S rRNA interface [nucleotide binding]; other site 158879001501 L7/L12 interface [polypeptide binding]; other site 158879001502 putative thiostrepton binding site; other site 158879001503 L25 interface [polypeptide binding]; other site 158879001504 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 158879001505 mRNA/rRNA interface [nucleotide binding]; other site 158879001506 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 158879001507 23S rRNA interface [nucleotide binding]; other site 158879001508 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 158879001509 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 158879001510 peripheral dimer interface [polypeptide binding]; other site 158879001511 core dimer interface [polypeptide binding]; other site 158879001512 L10 interface [polypeptide binding]; other site 158879001513 L11 interface [polypeptide binding]; other site 158879001514 putative EF-Tu interaction site [polypeptide binding]; other site 158879001515 putative EF-G interaction site [polypeptide binding]; other site 158879001516 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 158879001517 S-adenosylmethionine binding site [chemical binding]; other site 158879001518 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 158879001519 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl04591 158879001520 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 158879001521 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 158879001522 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 158879001523 RPB12 interaction site [polypeptide binding]; other site 158879001524 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 158879001525 RPB10 interaction site [polypeptide binding]; other site 158879001526 RPB1 interaction site [polypeptide binding]; other site 158879001527 RPB11 interaction site [polypeptide binding]; other site 158879001528 RPB3 interaction site [polypeptide binding]; other site 158879001529 RPB12 interaction site [polypeptide binding]; other site 158879001530 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 158879001531 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 158879001532 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 158879001533 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 158879001534 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 158879001535 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 158879001536 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 158879001537 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 158879001538 G-loop; other site 158879001539 DNA binding site [nucleotide binding] 158879001540 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 158879001541 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 158879001542 S17 interaction site [polypeptide binding]; other site 158879001543 S8 interaction site; other site 158879001544 16S rRNA interaction site [nucleotide binding]; other site 158879001545 streptomycin interaction site [chemical binding]; other site 158879001546 23S rRNA interaction site [nucleotide binding]; other site 158879001547 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 158879001548 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 158879001549 elongation factor G; Reviewed; Region: PRK00007 158879001550 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so...; Region: EF-G; cd01886 158879001551 G1 box; other site 158879001552 putative GEF interaction site [polypeptide binding]; other site 158879001553 GTP/Mg2+ binding site [chemical binding]; other site 158879001554 Switch I region; other site 158879001555 G2 box; other site 158879001556 G3 box; other site 158879001557 Switch II region; other site 158879001558 G4 box; other site 158879001559 G5 box; other site 158879001560 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 158879001561 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 158879001562 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 158879001563 elongation factor Tu; Reviewed; Region: PRK00049 158879001564 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 158879001565 G1 box; other site 158879001566 GEF interaction site [polypeptide binding]; other site 158879001567 GTP/Mg2+ binding site [chemical binding]; other site 158879001568 Switch I region; other site 158879001569 G2 box; other site 158879001570 G3 box; other site 158879001571 Switch II region; other site 158879001572 G4 box; other site 158879001573 G5 box; other site 158879001574 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 158879001575 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 158879001576 Antibiotic Binding Site [chemical binding]; other site 158879001577 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 158879001578 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 158879001579 metal binding site [ion binding]; metal-binding site 158879001580 dimer interface [polypeptide binding]; other site 158879001581 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 158879001582 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 158879001583 substrate-cofactor binding pocket; other site 158879001584 pyridoxal 5'-phosphate binding site [chemical binding]; other site 158879001585 catalytic residue [active] 158879001586 Type 1 glutamine amidotransferase (GATase1)-like domain found in Escherichia coli Hsp31 protein (EcHsp31); Region: GATase1_EcHsp31_like; cd03148 158879001587 dimer interface [polypeptide binding]; other site 158879001588 metal binding site [ion binding]; metal-binding site 158879001589 potential oxyanion hole; other site 158879001590 potential catalytic triad [active] 158879001591 conserved cys residue [active] 158879001592 ribulokinase; Provisional; Region: PRK04123 158879001593 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 158879001594 putative N- and C-terminal domain interface [polypeptide binding]; other site 158879001595 putative active site [active] 158879001596 putative MgATP binding site [chemical binding]; other site 158879001597 catalytic site [active] 158879001598 metal binding site [ion binding]; metal-binding site 158879001599 carbohydrate binding site [chemical binding]; other site 158879001600 homodimer interface [polypeptide binding]; other site 158879001601 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 158879001602 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879001603 NAD(P) binding site [chemical binding]; other site 158879001604 active site 158879001605 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 158879001606 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 158879001607 homodimer interface [polypeptide binding]; other site 158879001608 substrate-cofactor binding pocket; other site 158879001609 catalytic residue [active] 158879001610 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 158879001611 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 158879001612 motif II; other site 158879001613 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 158879001614 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 158879001615 Substrate-binding site [chemical binding]; other site 158879001616 Substrate specificity [chemical binding]; other site 158879001617 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 158879001618 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 158879001619 Substrate-binding site [chemical binding]; other site 158879001620 Substrate specificity [chemical binding]; other site 158879001621 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 158879001622 nucleoside/Zn binding site; other site 158879001623 dimer interface [polypeptide binding]; other site 158879001624 catalytic motif [active] 158879001625 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 158879001626 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 158879001627 active site 158879001628 motif I; other site 158879001629 motif II; other site 158879001630 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 158879001631 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 158879001632 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 158879001633 C-terminus of bacterial fibrinogen-binding adhesin; Region: SdrG_C_C; pfam10425 158879001634 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl15700 158879001635 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl15700 158879001636 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 158879001637 C-terminus of bacterial fibrinogen-binding adhesin; Region: SdrG_C_C; pfam10425 158879001638 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl15700 158879001639 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl15700 158879001640 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl15700 158879001641 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl15700 158879001642 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl15700 158879001643 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 158879001644 C-terminus of bacterial fibrinogen-binding adhesin; Region: SdrG_C_C; pfam10425 158879001645 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl15700 158879001646 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl15700 158879001647 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl15700 158879001648 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 158879001649 accessory Sec system glycosylation protein GtfA; Region: TIGR02918 158879001650 This family is most closely related to the GT1 family of glycosyltransferases and is named after gtfA in Streptococcus gordonii, where it plays a role in the O-linked glycosylation of GspB, a cell surface glycoprotein involved in platelet binding. In...; Region: GT1_gtfA_like; cd04949 158879001651 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 158879001652 accessory Sec system glycosylation protein GtfA; Region: TIGR02918 158879001653 This family is most closely related to the GT1 family of glycosyltransferases and is named after gtfA in Streptococcus gordonii, where it plays a role in the O-linked glycosylation of GspB, a cell surface glycoprotein involved in platelet binding. In...; Region: GT1_gtfA_like; cd04949 158879001654 Uncharacterized ACR, COG1469; Region: DUF198; cl00642 158879001655 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 158879001656 Protein of unknown function (DUF1806); Region: DUF1806; pfam08830 158879001657 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 158879001658 active site 158879001659 trimer interface [polypeptide binding]; other site 158879001660 allosteric site; other site 158879001661 active site lid [active] 158879001662 hexamer (dimer of trimers) interface [polypeptide binding]; other site 158879001663 3-Keto-L-gulonate 6-phosphate decarboxylase (KGPDC) and D-arabino-3-hexulose-6-phosphate synthase (HPS). KGPDC catalyzes the formation of L-xylulose 5-phosphate and carbon dioxide from 3-keto-L-gulonate 6-phosphate as part of the anaerobic pathway for...; Region: KGPDC_HPS; cd04726 158879001664 active site 158879001665 dimer interface [polypeptide binding]; other site 158879001666 magnesium binding site [ion binding]; other site 158879001667 Predicted sugar phosphate isomerase involved in capsule formation [Cell envelope biogenesis, outer membrane]; Region: GutQ; COG0794 158879001668 Hexulose-6-phosphate isomerase (PHI). PHI is a member of the SIS (Sugar ISomerase domain) superfamily. In the ribulose monophosphate pathway of formaldehyde fixation, hexulose-6-phosphate synthase catalyzes the condensation of ribulose-5-phosphate with...; Region: SIS_PHI; cd05005 158879001669 tetramer interface [polypeptide binding]; other site 158879001670 active site 158879001671 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 158879001672 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 158879001673 motif II; other site 158879001674 proline/glycine betaine transporter; Provisional; Region: PRK10642 158879001675 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 158879001676 putative substrate translocation pore; other site 158879001677 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 158879001678 AMP-binding enzyme; Region: AMP-binding; cl15778 158879001679 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 158879001680 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 158879001681 dimer interface [polypeptide binding]; other site 158879001682 active site 158879001683 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 158879001684 dimer interface [polypeptide binding]; other site 158879001685 substrate binding site [chemical binding]; other site 158879001686 ATP binding site [chemical binding]; other site 158879001687 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 158879001688 ligand binding site [chemical binding]; other site 158879001689 active site 158879001690 UGI interface [polypeptide binding]; other site 158879001691 catalytic site [active] 158879001692 Protein of unknown function (DUF423); Region: DUF423; cl01008 158879001693 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 158879001694 Amino acid permease; Region: AA_permease; cl00524 158879001695 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 158879001696 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 158879001697 Chlorite dismutase; Region: Chlor_dismutase; cl01280 158879001698 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 158879001699 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 158879001700 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 158879001701 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 158879001702 mevalonate kinase; Region: mevalon_kin; TIGR00549 158879001703 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 158879001704 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 158879001705 Mevalonate pyrophosphate decarboxylase [Lipid metabolism]; Region: MVD1; COG3407 158879001706 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 158879001707 phosphomevalonate kinase, ERG8-type, Gram-positive branch; Region: Pmev_kin_Gr_pos; TIGR01220 158879001708 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 158879001709 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 158879001710 Protein of unknown function (DUF1450); Region: DUF1450; cl11488 158879001711 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK07251 158879001712 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879001713 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879001714 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 158879001715 Predicted transcriptional regulator [Transcription]; Region: COG1959 158879001716 Helix-turn-helix domains; Region: HTH; cl00088 158879001717 Bacillus transposase protein; Region: Transposase_30; pfam04740 158879001718 Protein of unknown function (DUF443); Region: DUF443; cl04467 158879001719 Protein of unknown function (DUF443); Region: DUF443; cl04467 158879001720 Protein of unknown function (DUF443); Region: DUF443; cl04467 158879001721 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 158879001722 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 158879001723 active site 158879001724 catalytic tetrad [active] 158879001725 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 158879001726 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 158879001727 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 158879001728 Coenzyme A binding pocket [chemical binding]; other site 158879001729 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 158879001730 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 158879001731 Zn2+ binding site [ion binding]; other site 158879001732 Mg2+ binding site [ion binding]; other site 158879001733 YwhD family; Region: YwhD; pfam08741 158879001734 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 158879001735 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 158879001736 NAD binding site [chemical binding]; other site 158879001737 substrate binding site [chemical binding]; other site 158879001738 catalytic Zn binding site [ion binding]; other site 158879001739 tetramer interface [polypeptide binding]; other site 158879001740 structural Zn binding site [ion binding]; other site 158879001741 Domain of unknown function (DUF1934); Region: DUF1934; cl01870 158879001742 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 158879001743 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 158879001744 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 158879001745 active site 158879001746 HIGH motif; other site 158879001747 KMSK motif region; other site 158879001748 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 158879001749 tRNA binding surface [nucleotide binding]; other site 158879001750 anticodon binding site; other site 158879001751 Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]; Region: COG2231 158879001752 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 158879001753 minor groove reading motif; other site 158879001754 helix-hairpin-helix signature motif; other site 158879001755 substrate binding pocket [chemical binding]; other site 158879001756 active site 158879001757 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 158879001758 Periplasmic binding protein YvrC. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria and archaea. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: YvrC; cd01143 158879001759 putative binding site residues; other site 158879001760 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 158879001761 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 158879001762 ABC-ATPase subunit interface; other site 158879001763 dimer interface [polypeptide binding]; other site 158879001764 putative PBP binding regions; other site 158879001765 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 158879001766 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 158879001767 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 158879001768 motif II; other site 158879001769 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 158879001770 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 158879001771 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 158879001772 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 158879001773 Helix-turn-helix domains; Region: HTH; cl00088 158879001774 Protein of unknown function, DUF606; Region: DUF606; cl01273 158879001775 Protein of unknown function, DUF606; Region: DUF606; cl01273 158879001776 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 158879001777 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 158879001778 Phage integrase family; Region: Phage_integrase; pfam00589 158879001779 DNA binding site [nucleotide binding] 158879001780 Int/Topo IB signature motif; other site 158879001781 active site 158879001782 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12646 158879001783 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 158879001784 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 158879001785 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 158879001786 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 158879001787 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12663 158879001788 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 158879001789 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 158879001790 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 158879001791 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 158879001792 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 158879001793 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 158879001794 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 158879001795 Transposase; Region: DDE_Tnp_ISL3; pfam01610 158879001796 Metal binding protein PsaA. These proteins have been shown to function as initial receptors in ABC transport of Mn2+ and as surface adhesins in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins that...; Region: PsaA; cd01137 158879001797 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 158879001798 metal binding site [ion binding]; metal-binding site 158879001799 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 158879001800 ABC-ATPase subunit interface; other site 158879001801 dimer interface [polypeptide binding]; other site 158879001802 putative PBP binding regions; other site 158879001803 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 158879001804 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 158879001805 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 158879001806 Helix-turn-helix domains; Region: HTH; cl00088 158879001807 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 158879001808 FeoA domain; Region: FeoA; cl00838 158879001809 Peptidase M50B-like; Region: Peptidase_M50B; pfam13398 158879001810 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 158879001811 teichoic acids export protein ATP-binding subunit; Provisional; Region: PRK13546 158879001812 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 158879001813 Walker A/P-loop; other site 158879001814 ATP binding site [chemical binding]; other site 158879001815 Q-loop/lid; other site 158879001816 ABC transporter signature motif; other site 158879001817 Walker B; other site 158879001818 D-loop; other site 158879001819 H-loop/switch region; other site 158879001820 ABC-2 type transporter; Region: ABC2_membrane; cl11417 158879001821 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 158879001822 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 158879001823 active site 158879001824 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 158879001825 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 158879001826 active site 158879001827 nucleotide binding site [chemical binding]; other site 158879001828 HIGH motif; other site 158879001829 KMSKS motif; other site 158879001830 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 158879001831 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 158879001832 Domain of unknown function (DUF1958); Region: DUF1958; pfam09211 158879001833 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 158879001834 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 158879001835 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158879001836 Walker A/P-loop; other site 158879001837 ATP binding site [chemical binding]; other site 158879001838 Q-loop/lid; other site 158879001839 ABC transporter signature motif; other site 158879001840 Walker B; other site 158879001841 D-loop; other site 158879001842 H-loop/switch region; other site 158879001843 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 158879001844 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 158879001845 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 158879001846 Uncharacterized conserved protein [Function unknown]; Region: COG1284 158879001847 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 158879001848 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 158879001849 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 158879001850 Walker A/P-loop; other site 158879001851 ATP binding site [chemical binding]; other site 158879001852 Q-loop/lid; other site 158879001853 ABC transporter signature motif; other site 158879001854 Walker B; other site 158879001855 D-loop; other site 158879001856 H-loop/switch region; other site 158879001857 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 158879001858 ABC-ATPase subunit interface; other site 158879001859 dimer interface [polypeptide binding]; other site 158879001860 putative PBP binding regions; other site 158879001861 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 158879001862 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 158879001863 ABC-ATPase subunit interface; other site 158879001864 dimer interface [polypeptide binding]; other site 158879001865 putative PBP binding regions; other site 158879001866 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 158879001867 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 158879001868 DAK2 domain; Region: Dak2; cl03685 158879001869 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; cl00025 158879001870 Uncharacterized membrane protein [Function unknown]; Region: COG3949 158879001871 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 158879001872 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 158879001873 substrate binding pocket [chemical binding]; other site 158879001874 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 158879001875 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 158879001876 Coenzyme A binding pocket [chemical binding]; other site 158879001877 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 158879001878 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879001879 NAD(P) binding site [chemical binding]; other site 158879001880 active site 158879001881 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 158879001882 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 158879001883 active site 158879001884 phosphorylation site [posttranslational modification] 158879001885 intermolecular recognition site; other site 158879001886 dimerization interface [polypeptide binding]; other site 158879001887 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 158879001888 DNA binding site [nucleotide binding] 158879001889 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 158879001890 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 158879001891 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 158879001892 ATP binding site [chemical binding]; other site 158879001893 Mg2+ binding site [ion binding]; other site 158879001894 G-X-G motif; other site 158879001895 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 158879001896 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 158879001897 Walker A/P-loop; other site 158879001898 ATP binding site [chemical binding]; other site 158879001899 Q-loop/lid; other site 158879001900 ABC transporter signature motif; other site 158879001901 Walker B; other site 158879001902 D-loop; other site 158879001903 H-loop/switch region; other site 158879001904 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 158879001905 Phosphate transporter family; Region: PHO4; cl00396 158879001906 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 158879001907 putative peptidoglycan binding site; other site 158879001908 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 158879001909 putative peptidoglycan binding site; other site 158879001910 NlpC/P60 family; Region: NLPC_P60; cl11438 158879001911 BAX inhibitor (BI)-1/YccA-like protein family; Region: BI-1-like; cl00473 158879001912 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 158879001913 Helix-turn-helix domains; Region: HTH; cl00088 158879001914 Domain of unknown function DUF28; Region: DUF28; cl00361 158879001915 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 158879001916 Protein of unknown function (DUF402); Region: DUF402; cl00979 158879001917 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 158879001918 dimerization interface [polypeptide binding]; other site 158879001919 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 158879001920 sugar efflux transporter; Region: 2A0120; TIGR00899 158879001921 putative substrate translocation pore; other site 158879001922 Protein of unknown function (DUF456); Region: DUF456; cl01069 158879001923 Serine incorporator (Serinc); Region: Serinc; pfam03348 158879001924 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 158879001925 Coenzyme A binding pocket [chemical binding]; other site 158879001926 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 158879001927 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 158879001928 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 158879001929 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 158879001930 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 158879001931 Bacitracin resistance protein BacA; Region: BacA; cl00858 158879001932 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 158879001933 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 158879001934 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 158879001935 Walker A/P-loop; other site 158879001936 ATP binding site [chemical binding]; other site 158879001937 Q-loop/lid; other site 158879001938 ABC transporter signature motif; other site 158879001939 Walker B; other site 158879001940 D-loop; other site 158879001941 H-loop/switch region; other site 158879001942 ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydC; COG4987 158879001943 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 158879001944 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 158879001945 Walker A/P-loop; other site 158879001946 ATP binding site [chemical binding]; other site 158879001947 Q-loop/lid; other site 158879001948 ABC transporter signature motif; other site 158879001949 Walker B; other site 158879001950 D-loop; other site 158879001951 H-loop/switch region; other site 158879001952 Transcriptional regulators [Transcription]; Region: MarR; COG1846 158879001953 Helix-turn-helix domains; Region: HTH; cl00088 158879001954 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 158879001955 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158879001956 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 158879001957 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 158879001958 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 158879001959 active site 158879001960 catalytic tetrad [active] 158879001961 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 158879001962 transmembrane helices; other site 158879001963 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 158879001964 DNA photolyase; Region: DNA_photolyase; pfam00875 158879001965 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 158879001966 Protein of unknown function (DUF1361); Region: DUF1361; cl01784 158879001967 Domain of unknown function (DUF296); Region: DUF296; cl00720 158879001968 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 158879001969 putative substrate translocation pore; other site 158879001970 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 158879001971 putative deacylase active site [active] 158879001972 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 158879001973 Helix-turn-helix domains; Region: HTH; cl00088 158879001974 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 158879001975 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 158879001976 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 158879001977 putative substrate binding site [chemical binding]; other site 158879001978 putative ATP binding site [chemical binding]; other site 158879001979 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 158879001980 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 158879001981 active site 158879001982 phosphorylation site [posttranslational modification] 158879001983 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 158879001984 P-loop; other site 158879001985 active site 158879001986 phosphorylation site [posttranslational modification] 158879001987 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 158879001988 N-acetylglucosamine-6-phosphate deacetylase; Region: nagA; TIGR00221 158879001989 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 158879001990 active site 158879001991 dimer interface [polypeptide binding]; other site 158879001992 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 158879001993 Domain of unknown function DUF21; Region: DUF21; pfam01595 158879001994 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 158879001995 Transporter associated domain; Region: CorC_HlyC; cl08393 158879001996 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 158879001997 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 158879001998 active site 158879001999 catalytic tetrad [active] 158879002000 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 158879002001 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 158879002002 Ligand binding site; other site 158879002003 Putative Catalytic site; other site 158879002004 DXD motif; other site 158879002005 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 158879002006 dimer interface [polypeptide binding]; other site 158879002007 phosphorylation site [posttranslational modification] 158879002008 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 158879002009 ATP binding site [chemical binding]; other site 158879002010 Mg2+ binding site [ion binding]; other site 158879002011 G-X-G motif; other site 158879002012 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 158879002013 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 158879002014 active site 158879002015 phosphorylation site [posttranslational modification] 158879002016 intermolecular recognition site; other site 158879002017 dimerization interface [polypeptide binding]; other site 158879002018 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 158879002019 DNA binding site [nucleotide binding] 158879002020 Electron transfer DM13; Region: DM13; cl02735 158879002021 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 158879002022 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 158879002023 active site 158879002024 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 158879002025 Ligand Binding Site [chemical binding]; other site 158879002026 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 158879002027 Glutamine amidotransferase class-I; Region: GATase; pfam00117 158879002028 glutamine binding [chemical binding]; other site 158879002029 catalytic triad [active] 158879002030 aminodeoxychorismate synthase; Provisional; Region: PRK07508 158879002031 chorismate binding enzyme; Region: Chorismate_bind; cl10555 158879002032 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and 4-amino-4-deoxychorismate...; Region: PLPDE_IV; cl00224 158879002033 substrate-cofactor binding pocket; other site 158879002034 pyridoxal 5'-phosphate binding site [chemical binding]; other site 158879002035 catalytic residue [active] 158879002036 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 158879002037 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 158879002038 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 158879002039 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 158879002040 Sulfatase; Region: Sulfatase; cl10460 158879002041 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 158879002042 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 158879002043 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 158879002044 ABC transporter; Region: ABC_tran_2; pfam12848 158879002045 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 158879002046 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 158879002047 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 158879002048 ATP binding site [chemical binding]; other site 158879002049 putative Mg++ binding site [ion binding]; other site 158879002050 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 158879002051 nucleotide binding region [chemical binding]; other site 158879002052 ATP-binding site [chemical binding]; other site 158879002053 RQC domain; Region: RQC; cl09632 158879002054 HRDC domain; Region: HRDC; cl02578 158879002055 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 158879002056 OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment. ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of...; Region: ABC_OpuCA_Osmoprotection; cd03295 158879002057 Walker A/P-loop; other site 158879002058 ATP binding site [chemical binding]; other site 158879002059 Q-loop/lid; other site 158879002060 ABC transporter signature motif; other site 158879002061 Walker B; other site 158879002062 D-loop; other site 158879002063 H-loop/switch region; other site 158879002064 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 158879002065 dimer interface [polypeptide binding]; other site 158879002066 conserved gate region; other site 158879002067 ABC-ATPase subunit interface; other site 158879002068 NMT1-like family; Region: NMT1_2; cl15260 158879002069 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 158879002070 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 158879002071 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 158879002072 pyridoxal 5'-phosphate binding site [chemical binding]; other site 158879002073 homodimer interface [polypeptide binding]; other site 158879002074 catalytic residue [active] 158879002075 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 158879002076 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 158879002077 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 158879002078 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 158879002079 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 158879002080 putative substrate translocation pore; other site 158879002081 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 158879002082 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 158879002083 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 158879002084 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07632 158879002085 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 158879002086 Class I ribonucleotide reductase; Region: RNR_I; cd01679 158879002087 active site 158879002088 dimer interface [polypeptide binding]; other site 158879002089 catalytic residues [active] 158879002090 effector binding site; other site 158879002091 R2 peptide binding site; other site 158879002092 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 158879002093 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 158879002094 dimer interface [polypeptide binding]; other site 158879002095 putative radical transfer pathway; other site 158879002096 diiron center [ion binding]; other site 158879002097 tyrosyl radical; other site 158879002098 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 158879002099 ABC-ATPase subunit interface; other site 158879002100 dimer interface [polypeptide binding]; other site 158879002101 putative PBP binding regions; other site 158879002102 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 158879002103 ABC-ATPase subunit interface; other site 158879002104 dimer interface [polypeptide binding]; other site 158879002105 putative PBP binding regions; other site 158879002106 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 158879002107 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 158879002108 Walker A/P-loop; other site 158879002109 ATP binding site [chemical binding]; other site 158879002110 Q-loop/lid; other site 158879002111 ABC transporter signature motif; other site 158879002112 Walker B; other site 158879002113 D-loop; other site 158879002114 H-loop/switch region; other site 158879002115 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 158879002116 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 158879002117 putative ligand binding residues [chemical binding]; other site 158879002118 Zinc finger domain containing protein (CHY type) [Function unknown]; Region: COG4357 158879002119 CHY zinc finger; Region: zf-CHY; pfam05495 158879002120 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13906 158879002121 FAD binding domain; Region: FAD_binding_4; pfam01565 158879002122 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 158879002123 Uncharacterised protein family (UPF0157); Region: UPF0157; cl00987 158879002124 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 158879002125 Glycerate kinase family; Region: Gly_kinase; cl00841 158879002126 peptidase T; Region: peptidase-T; TIGR01882 158879002127 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 158879002128 metal binding site [ion binding]; metal-binding site 158879002129 dimer interface [polypeptide binding]; other site 158879002130 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 158879002131 Uncharacterized conserved protein [Function unknown]; Region: COG2966 158879002132 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 158879002133 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 158879002134 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 158879002135 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 158879002136 metal binding site [ion binding]; metal-binding site 158879002137 active site 158879002138 I-site; other site 158879002139 phospho-N-acetylmuramoyl-pentapeptide-transferase; Region: mraY; TIGR00445 158879002140 This subfamily contains Escherichia coli WecA, Bacillus subtilis TagO and related proteins. WecA is an UDP-N-acetylglucosamine (GlcNAc):undecaprenyl-phosphate (Und-P) GlcNAc-1-phosphate transferase that catalyzes the formation of a phosphodiester bond...; Region: GT_WecA_like; cd06853 158879002141 Mg++ binding site [ion binding]; other site 158879002142 putative catalytic motif [active] 158879002143 substrate binding site [chemical binding]; other site 158879002144 Uncharacterized conserved protein [Function unknown]; Region: COG1739 158879002145 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 158879002146 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 158879002147 Uncharacterised protein, DegV family COG1307; Region: DegV; cl00577 158879002148 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158879002149 putative Mg++ binding site [ion binding]; other site 158879002150 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 158879002151 nucleotide binding region [chemical binding]; other site 158879002152 ATP-binding site [chemical binding]; other site 158879002153 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 158879002154 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 158879002155 active site 158879002156 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 158879002157 30S subunit binding site; other site 158879002158 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 158879002159 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158879002160 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 158879002161 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 158879002162 nucleotide binding region [chemical binding]; other site 158879002163 ATP-binding site [chemical binding]; other site 158879002164 SEC-C motif; Region: SEC-C; pfam02810 158879002165 peptide chain release factor 2; Provisional; Region: PRK06746 158879002166 RF-1 domain; Region: RF-1; cl02875 158879002167 RF-1 domain; Region: RF-1; cl02875 158879002168 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 158879002169 putative peptidoglycan binding site; other site 158879002170 NlpC/P60 family; Region: NLPC_P60; cl11438 158879002171 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 158879002172 Uncharacterized protein conserved in bacteria (DUF2198); Region: DUF2198; cl11559 158879002173 excinuclease ABC subunit B; Provisional; Region: PRK05298 158879002174 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 158879002175 ATP binding site [chemical binding]; other site 158879002176 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 158879002177 nucleotide binding region [chemical binding]; other site 158879002178 ATP-binding site [chemical binding]; other site 158879002179 Ultra-violet resistance protein B; Region: UvrB; pfam12344 158879002180 UvrB/uvrC motif; Region: UVR; pfam02151 158879002181 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 158879002182 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 158879002183 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 158879002184 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 158879002185 HPr kinase/phosphorylase; Provisional; Region: PRK05428 158879002186 DRTGG domain; Region: DRTGG; cl12147 158879002187 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 158879002188 Hpr binding site; other site 158879002189 active site 158879002190 homohexamer subunit interaction site [polypeptide binding]; other site 158879002191 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 158879002192 putative acyl transferase; Provisional; Region: PRK10191 158879002193 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 158879002194 trimer interface [polypeptide binding]; other site 158879002195 active site 158879002196 substrate binding site [chemical binding]; other site 158879002197 CoA binding site [chemical binding]; other site 158879002198 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 158879002199 binding surface 158879002200 TPR motif; other site 158879002201 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 158879002202 TPR motif; other site 158879002203 binding surface 158879002204 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879002205 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 158879002206 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879002207 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158879002208 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 158879002209 Family of CofD-like proteins and proteins related to YvcK; Region: CofD_YvcK; cd07044 158879002210 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 158879002211 phosphate binding site [ion binding]; other site 158879002212 dimer interface [polypeptide binding]; other site 158879002213 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 158879002214 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 158879002215 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 158879002216 oligomer interface [polypeptide binding]; other site 158879002217 active site residues [active] 158879002218 TIGR01777 family protein; Region: yfcH 158879002219 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879002220 NAD(P) binding site [chemical binding]; other site 158879002221 active site 158879002222 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 158879002223 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 158879002224 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 158879002225 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 158879002226 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 158879002227 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 158879002228 Phosphoglycerate kinase; Region: PGK; pfam00162 158879002229 substrate binding site [chemical binding]; other site 158879002230 hinge regions; other site 158879002231 ADP binding site [chemical binding]; other site 158879002232 catalytic site [active] 158879002233 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 158879002234 substrate binding site [chemical binding]; other site 158879002235 dimer interface [polypeptide binding]; other site 158879002236 catalytic triad [active] 158879002237 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 158879002238 Sulfatase; Region: Sulfatase; cl10460 158879002239 enolase; Provisional; Region: eno; PRK00077 158879002240 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 158879002241 dimer interface [polypeptide binding]; other site 158879002242 metal binding site [ion binding]; metal-binding site 158879002243 substrate binding pocket [chemical binding]; other site 158879002244 Preprotein translocase SecG subunit; Region: SecG; cl09123 158879002245 Esterase/lipase [General function prediction only]; Region: COG1647 158879002246 ribonuclease R; Region: RNase_R; TIGR02063 158879002247 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 158879002248 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 158879002249 RNB domain; Region: RNB; pfam00773 158879002250 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an important...; Region: S1_RNase_R; cd04471 158879002251 RNA binding site [nucleotide binding]; other site 158879002252 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 158879002253 SmpB-tmRNA interface; other site 158879002254 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 158879002255 Coenzyme A binding pocket [chemical binding]; other site 158879002256 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 158879002257 C-terminus of bacterial fibrinogen-binding adhesin; Region: SdrG_C_C; pfam10425 158879002258 Staphylococcus aureus coagulase; Region: Coagulase; pfam08764 158879002259 Staphylococcal nuclease homologues; Region: SNc; smart00318 158879002260 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 158879002261 Catalytic site; other site 158879002262 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 158879002263 DNA-binding site [nucleotide binding]; DNA binding site 158879002264 RNA-binding motif; other site 158879002265 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 158879002266 Protein of unknown function (DUF1250); Region: DUF1250; cl11485 158879002267 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 158879002268 catalytic core [active] 158879002269 LysE type translocator; Region: LysE; cl00565 158879002270 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 158879002271 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 158879002272 OsmC-like protein; Region: OsmC; cl00767 158879002273 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 158879002274 active site 158879002275 3-dehydroquinate dehydratase, type I; Region: aroD; TIGR01093 158879002276 catalytic residue [active] 158879002277 dimer interface [polypeptide binding]; other site 158879002278 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 158879002279 putative FMN binding site [chemical binding]; other site 158879002280 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 158879002281 catalytic residues [active] 158879002282 Arsenate Reductase (ArsC) family, unknown subfamily; uncharacterized proteins containing a CXXC motif with similarity to thioredoxin (TRX)-fold arsenic reductases, ArsC. Proteins containing a redox active CXXC motif like TRX and glutaredoxin (GRX)...; Region: ArsC_like; cd03036 158879002283 ArsC family; Region: ArsC; pfam03960 158879002284 putative ArsC-like catalytic residues; other site 158879002285 putative TRX-like catalytic residues [active] 158879002286 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 158879002287 lipoyl attachment site [posttranslational modification]; other site 158879002288 Domain of unknown function (DUF1963); Region: DUF1963; cl01600 158879002289 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 158879002290 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 158879002291 Tn544A and related transposases, DNA breaking-rejoining enzymes, integrase/recombinases, C-terminal catalytic domain. This CD includes various bacterial transposases similar to TnpA from transposon Tn554; Region: INT_Tn554A_C; cd01194 158879002292 Int/Topo IB signature motif; other site 158879002293 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 158879002294 Tn544B and related transposases, DNA breaking-rejoining enzymes, integrase/recombinases, catalytic domain. This CD includes various bacterial transposases similar to TnpB from transposon Tn554; Region: INT_Tn544B_C; cd01195 158879002295 Phage integrase family; Region: Phage_integrase; pfam00589 158879002296 Int/Topo IB signature motif; other site 158879002297 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 158879002298 active site 158879002299 NTP binding site [chemical binding]; other site 158879002300 metal binding triad [ion binding]; metal-binding site 158879002301 antibiotic binding site [chemical binding]; other site 158879002302 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 158879002303 S-adenosylmethionine binding site [chemical binding]; other site 158879002304 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 158879002305 S-adenosylmethionine binding site [chemical binding]; other site 158879002306 Domain of unknown function (DUF1963); Region: DUF1963; cl01600 158879002307 TOPRIM_ RNase M5_like: The topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain found in Ribonuclease M5: (RNase M5) and other small primase-like proteins from bacteria and archaea. RNase M5 catalyzes the maturation of 5S rRNA in low...; Region: TOPRIM_RNase_M5_like; cd01027 158879002308 putative active site [active] 158879002309 putative metal binding site [ion binding]; other site 158879002310 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 158879002311 catalytic residues [active] 158879002312 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 158879002313 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 158879002314 Walker A/P-loop; other site 158879002315 ATP binding site [chemical binding]; other site 158879002316 Q-loop/lid; other site 158879002317 ABC transporter signature motif; other site 158879002318 Walker B; other site 158879002319 D-loop; other site 158879002320 H-loop/switch region; other site 158879002321 NIL domain; Region: NIL; cl09633 158879002322 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 158879002323 dimer interface [polypeptide binding]; other site 158879002324 conserved gate region; other site 158879002325 ABC-ATPase subunit interface; other site 158879002326 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 158879002327 CsbD-like; Region: CsbD; cl01888 158879002328 Domain of unknown function (DUF368); Region: DUF368; cl00893 158879002329 FeS assembly ATPase SufC; Region: sufC; TIGR01978 158879002330 ABC-type transport system involved in Fe-S cluster assembly, ATPase component. Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under...; Region: ABC_FeS_Assembly; cd03217 158879002331 Walker A/P-loop; other site 158879002332 ATP binding site [chemical binding]; other site 158879002333 Q-loop/lid; other site 158879002334 ABC transporter signature motif; other site 158879002335 Walker B; other site 158879002336 D-loop; other site 158879002337 H-loop/switch region; other site 158879002338 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 158879002339 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 158879002340 Aminotransferase class-V; Region: Aminotran_5; pfam00266 158879002341 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 158879002342 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 158879002343 catalytic residue [active] 158879002344 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 158879002345 trimerization site [polypeptide binding]; other site 158879002346 active site 158879002347 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 158879002348 FeS assembly protein SufB; Region: sufB; TIGR01980 158879002349 Domain of unknown function DUF21; Region: DUF21; pfam01595 158879002350 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 158879002351 Nitronate monooxygenase; Region: NMO; pfam03060 158879002352 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 158879002353 FMN binding site [chemical binding]; other site 158879002354 substrate binding site [chemical binding]; other site 158879002355 putative catalytic residue [active] 158879002356 Protein of unknown function DUF72; Region: DUF72; cl00777 158879002357 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 158879002358 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 158879002359 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 158879002360 active site 158879002361 metal binding site [ion binding]; metal-binding site 158879002362 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 158879002363 lipoyl synthase; Provisional; Region: PRK05481 158879002364 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 158879002365 FeS/SAM binding site; other site 158879002366 Protein of unknown function (DUF1027); Region: DUF1027; cl09961 158879002367 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 158879002368 Transposase; Region: DDE_Tnp_ISL3; pfam01610 158879002369 Protein of unknown function (DUF3055); Region: DUF3055; pfam11256 158879002370 Protein of unknown function DUF86; Region: DUF86; cl01031 158879002371 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 158879002372 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 158879002373 active site 158879002374 motif I; other site 158879002375 motif II; other site 158879002376 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 158879002377 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 158879002378 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879002379 D-Ala-teichoic acid biosynthesis protein; Region: DUF3687; pfam12459 158879002380 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 158879002381 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 158879002382 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 158879002383 MBOAT family; Region: MBOAT; cl00738 158879002384 Phosphopantetheine attachment site; Region: PP-binding; cl09936 158879002385 Protein involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]; Region: DltD; COG3966 158879002386 DltD N-terminal region; Region: DltD_N; pfam04915 158879002387 DltD central region; Region: DltD_M; pfam04918 158879002388 DltD C-terminal region; Region: DltD_C; pfam04914 158879002389 NifU-like domain; Region: NifU; cl00484 158879002390 Protein of unknown function (DUF1462); Region: DUF1462; cl11552 158879002391 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 158879002392 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879002393 Protein of unknown function (DUF1450); Region: DUF1450; cl11488 158879002394 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 158879002395 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 158879002396 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879002397 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 158879002398 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 158879002399 interface (dimer of trimers) [polypeptide binding]; other site 158879002400 Substrate-binding/catalytic site; other site 158879002401 Zn-binding sites [ion binding]; other site 158879002402 Predicted permease [General function prediction only]; Region: COG2056 158879002403 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 158879002404 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 158879002405 CoenzymeA binding site [chemical binding]; other site 158879002406 subunit interaction site [polypeptide binding]; other site 158879002407 PHB binding site; other site 158879002408 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 158879002409 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 158879002410 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 158879002411 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 158879002412 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK07691 158879002413 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 158879002414 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 158879002415 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 158879002416 monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12645 158879002417 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 158879002418 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 158879002419 Kinase associated protein B; Region: KapB; pfam08810 158879002420 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 158879002421 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 158879002422 active site 158879002423 Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]; Region: VacB; COG1098 158879002424 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 158879002425 Old yellow enzyme (OYE)-related FMN binding domain, group 4. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_4_FMN; cd04735 158879002426 putative active site [active] 158879002427 putative FMN binding site [chemical binding]; other site 158879002428 putative substrate binding site [chemical binding]; other site 158879002429 putative catalytic residue [active] 158879002430 ornithine--oxo-acid transaminase; Provisional; Region: rocD; PRK04073 158879002431 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 158879002432 inhibitor-cofactor binding pocket; inhibition site 158879002433 pyridoxal 5'-phosphate binding site [chemical binding]; other site 158879002434 catalytic residue [active] 158879002435 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 158879002436 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 158879002437 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 158879002438 NAD(P) binding site [chemical binding]; other site 158879002439 Glycerophosphodiester phosphodiesterase domain of Staphylococcus aureus and similar proteins; Region: GDPD_SaGlpQ_like; cd08601 158879002440 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 158879002441 active site 158879002442 catalytic site [active] 158879002443 metal binding site [ion binding]; metal-binding site 158879002444 argininosuccinate lyase; Provisional; Region: PRK00855 158879002445 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 158879002446 active sites [active] 158879002447 tetramer interface [polypeptide binding]; other site 158879002448 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 158879002449 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 158879002450 ANP binding site [chemical binding]; other site 158879002451 Substrate Binding Site II [chemical binding]; other site 158879002452 Substrate Binding Site I [chemical binding]; other site 158879002453 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 158879002454 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 158879002455 active site 158879002456 dimer interface [polypeptide binding]; other site 158879002457 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 158879002458 dimer interface [polypeptide binding]; other site 158879002459 active site 158879002460 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 158879002461 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 158879002462 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 158879002463 Catalytic site [active] 158879002464 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 158879002465 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 158879002466 Catalytic site [active] 158879002467 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 158879002468 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 158879002469 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 158879002470 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158879002471 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158879002472 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 158879002473 Protein of unknown function (DUF1516); Region: DUF1516; cl11654 158879002474 coenzyme A disulfide reductase; Provisional; Region: PRK13512 158879002475 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879002476 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 158879002477 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 158879002478 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 158879002479 active site 158879002480 motif I; other site 158879002481 motif II; other site 158879002482 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 158879002483 Domain of unknown function DUF59; Region: DUF59; cl00941 158879002484 OpgC protein; Region: OpgC_C; cl00792 158879002485 Acyltransferase family; Region: Acyl_transf_3; pfam01757 158879002486 yrhL-like subfamily of SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_yrhL_like; cd01840 158879002487 catalytic triad [active] 158879002488 catalytic triad [active] 158879002489 oxyanion hole [active] 158879002490 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 158879002491 Clp amino terminal domain; Region: Clp_N; pfam02861 158879002492 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 158879002493 Walker A motif; other site 158879002494 ATP binding site [chemical binding]; other site 158879002495 Walker B motif; other site 158879002496 arginine finger; other site 158879002497 Helicobacter pylori protein of unknown function (DUF874); Region: DUF874; pfam05917 158879002498 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 158879002499 Walker A motif; other site 158879002500 ATP binding site [chemical binding]; other site 158879002501 Walker B motif; other site 158879002502 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 158879002503 Transcriptional regulator [Transcription]; Region: LysR; COG0583 158879002504 Helix-turn-helix domains; Region: HTH; cl00088 158879002505 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 158879002506 dimerization interface [polypeptide binding]; other site 158879002507 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 158879002508 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 158879002509 active site 158879002510 catalytic residues [active] 158879002511 metal binding site [ion binding]; metal-binding site 158879002512 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 158879002513 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 158879002514 substrate binding site [chemical binding]; other site 158879002515 MAP domain; Region: MAP; pfam03642 158879002516 Protein of unknown function (DUF2929); Region: DUF2929; pfam11151 158879002517 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 158879002518 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 158879002519 dimer interface [polypeptide binding]; other site 158879002520 active site 158879002521 CoA binding pocket [chemical binding]; other site 158879002522 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 158879002523 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 158879002524 dimer interface [polypeptide binding]; other site 158879002525 active site 158879002526 Domain of unknown function (DUF3899); Region: DUF3899; pfam13038 158879002527 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 158879002528 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 158879002529 dimer interface [polypeptide binding]; other site 158879002530 conserved gate region; other site 158879002531 putative PBP binding loops; other site 158879002532 ABC-ATPase subunit interface; other site 158879002533 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 158879002534 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 158879002535 dimer interface [polypeptide binding]; other site 158879002536 conserved gate region; other site 158879002537 putative PBP binding loops; other site 158879002538 ABC-ATPase subunit interface; other site 158879002539 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 158879002540 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 158879002541 Walker A/P-loop; other site 158879002542 ATP binding site [chemical binding]; other site 158879002543 Q-loop/lid; other site 158879002544 ABC transporter signature motif; other site 158879002545 Walker B; other site 158879002546 D-loop; other site 158879002547 H-loop/switch region; other site 158879002548 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 158879002549 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 158879002550 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 158879002551 Walker A/P-loop; other site 158879002552 ATP binding site [chemical binding]; other site 158879002553 Q-loop/lid; other site 158879002554 ABC transporter signature motif; other site 158879002555 Walker B; other site 158879002556 D-loop; other site 158879002557 H-loop/switch region; other site 158879002558 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 158879002559 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 158879002560 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 158879002561 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 158879002562 peptide binding site [polypeptide binding]; other site 158879002563 The substrate binding component of an ABC-type lactococcal OppA-like transport system contains; Region: PBP2_Lactococcal_OppA_like; cd08510 158879002564 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 158879002565 peptide binding site [polypeptide binding]; other site 158879002566 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 158879002567 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 158879002568 Walker A/P-loop; other site 158879002569 ATP binding site [chemical binding]; other site 158879002570 Q-loop/lid; other site 158879002571 ABC transporter signature motif; other site 158879002572 Walker B; other site 158879002573 D-loop; other site 158879002574 H-loop/switch region; other site 158879002575 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 158879002576 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 158879002577 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 158879002578 Walker A/P-loop; other site 158879002579 ATP binding site [chemical binding]; other site 158879002580 Q-loop/lid; other site 158879002581 ABC transporter signature motif; other site 158879002582 Walker B; other site 158879002583 D-loop; other site 158879002584 H-loop/switch region; other site 158879002585 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 158879002586 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 158879002587 dimer interface [polypeptide binding]; other site 158879002588 conserved gate region; other site 158879002589 putative PBP binding loops; other site 158879002590 ABC-ATPase subunit interface; other site 158879002591 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 158879002592 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 158879002593 dimer interface [polypeptide binding]; other site 158879002594 conserved gate region; other site 158879002595 putative PBP binding loops; other site 158879002596 ABC-ATPase subunit interface; other site 158879002597 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 158879002598 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 158879002599 active site 158879002600 HIGH motif; other site 158879002601 dimer interface [polypeptide binding]; other site 158879002602 KMSKS motif; other site 158879002603 Arsenate Reductase (ArsC) family, Spx subfamily; Spx is a unique RNA polymerase (RNAP)-binding protein present in bacilli and some mollicutes. It inhibits transcription by binding to the C-terminal domain of the alpha subunit of RNAP, disrupting complex...; Region: ArsC_Spx; cd03032 158879002604 ArsC family; Region: ArsC; pfam03960 158879002605 putative catalytic residues [active] 158879002606 thiol/disulfide switch; other site 158879002607 Negative regulator of genetic competence (MecA); Region: MecA; cl02022 158879002608 Competence protein CoiA-like family; Region: CoiA; cl11541 158879002609 oligoendopeptidase F; Region: pepF; TIGR00181 158879002610 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 158879002611 active site 158879002612 Zn binding site [ion binding]; other site 158879002613 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 158879002614 DsbA family, FrnE-like subfamily; composed of uncharacterized proteins containing a CXXC motif with similarity to DsbA and FrnE. FrnE is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the...; Region: DsbA_FrnE_like; cd03025 158879002615 catalytic residues [active] 158879002616 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 158879002617 apolar tunnel; other site 158879002618 heme binding site [chemical binding]; other site 158879002619 dimerization interface [polypeptide binding]; other site 158879002620 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 158879002621 putative active site [active] 158879002622 putative metal binding residues [ion binding]; other site 158879002623 signature motif; other site 158879002624 putative triphosphate binding site [ion binding]; other site 158879002625 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 158879002626 synthetase active site [active] 158879002627 NTP binding site [chemical binding]; other site 158879002628 metal binding site [ion binding]; metal-binding site 158879002629 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 158879002630 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 158879002631 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 158879002632 active site 158879002633 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 158879002634 MgtE intracellular N domain; Region: MgtE_N; cl15244 158879002635 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 158879002636 Divalent cation transporter; Region: MgtE; cl00786 158879002637 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 158879002638 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 158879002639 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 158879002640 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879002641 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 158879002642 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 158879002643 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 158879002644 NAD binding site [chemical binding]; other site 158879002645 homotetramer interface [polypeptide binding]; other site 158879002646 homodimer interface [polypeptide binding]; other site 158879002647 substrate binding site [chemical binding]; other site 158879002648 active site 158879002649 Domain of unknown function DUF20; Region: UPF0118; cl00465 158879002650 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 158879002651 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 158879002652 Putative esterase; Region: Esterase; pfam00756 158879002653 hypothetical protein; Provisional; Region: PRK13679 158879002654 2',5' RNA ligase family; Region: 2_5_RNA_ligase; pfam02834 158879002655 Major Facilitator Superfamily; Region: MFS_1; pfam07690 158879002656 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 158879002657 putative substrate translocation pore; other site 158879002658 diacylglycerol glucosyltransferase; Provisional; Region: PRK13608 158879002659 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 158879002660 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 158879002661 UDP-N-acetylmuramoylalanyl-D-glutamate--L-lysine ligase; Provisional; Region: PRK14022 158879002662 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 158879002663 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 158879002664 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 158879002665 YueH-like protein; Region: YueH; pfam14166 158879002666 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 158879002667 RF3 subfamily. Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and...; Region: RF3; cd04169 158879002668 G1 box; other site 158879002669 putative GEF interaction site [polypeptide binding]; other site 158879002670 GTP/Mg2+ binding site [chemical binding]; other site 158879002671 Switch I region; other site 158879002672 G2 box; other site 158879002673 G3 box; other site 158879002674 Switch II region; other site 158879002675 G4 box; other site 158879002676 G5 box; other site 158879002677 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 158879002678 Integral membrane protein TerC family; Region: TerC; cl10468 158879002679 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 158879002680 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 158879002681 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 158879002682 Cation transport protein; Region: TrkH; cl10514 158879002683 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 158879002684 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 158879002685 active site 158879002686 metal binding site [ion binding]; metal-binding site 158879002687 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 158879002688 ComK protein; Region: ComK; cl11560 158879002689 IDEAL domain; Region: IDEAL; cl07452 158879002690 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 158879002691 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 158879002692 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 158879002693 Uncharacterized protein conserved in bacteria (DUF2187); Region: DUF2187; cl11556 158879002694 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 158879002695 Bacteriocin (Lactococcin_972); Region: Lactococcin_972; cl09891 158879002696 bacteriocin-associated integral membrane (putative immunity) protein; Region: bact_immun_7tm; TIGR01654 158879002697 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 158879002698 Protein of unknown function (DUF1093); Region: DUF1093; cl02185 158879002699 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 158879002700 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 158879002701 Walker A/P-loop; other site 158879002702 ATP binding site [chemical binding]; other site 158879002703 Q-loop/lid; other site 158879002704 ABC transporter signature motif; other site 158879002705 Walker B; other site 158879002706 D-loop; other site 158879002707 H-loop/switch region; other site 158879002708 DoxX; Region: DoxX; cl00976 158879002709 ABC-type Fe3+-citrate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FecB; COG4594 158879002710 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 158879002711 siderophore binding site; other site 158879002712 TM2 domain; Region: TM2; cl00984 158879002713 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 158879002714 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 158879002715 Coenzyme A binding pocket [chemical binding]; other site 158879002716 UbiA prenyltransferase family; Region: UbiA; cl00337 158879002717 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 158879002718 chorismate binding enzyme; Region: Chorismate_bind; cl10555 158879002719 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase [Coenzyme metabolism]; Region: MenD; COG1165 158879002720 Pyrimidine (PYR) binding domain of 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexadiene-1- carboxylate synthase (MenD) and related proteins; Region: TPP_PYR_MenD; cd07037 158879002721 dimer interface [polypeptide binding]; other site 158879002722 tetramer interface [polypeptide binding]; other site 158879002723 PYR/PP interface [polypeptide binding]; other site 158879002724 TPP binding site [chemical binding]; other site 158879002725 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 158879002726 TPP-binding site; other site 158879002727 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 158879002728 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 158879002729 dihydroxynaphthoic acid synthetase; Validated; Region: PRK07396 158879002730 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 158879002731 substrate binding site [chemical binding]; other site 158879002732 oxyanion hole (OAH) forming residues; other site 158879002733 trimer interface [polypeptide binding]; other site 158879002734 Staphostatin B; Region: Staphostatin_B; pfam09023 158879002735 Staphopain peptidase C47; Region: Peptidase_C47; pfam05543 158879002736 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 158879002737 aminotransferase A; Validated; Region: PRK07683 158879002738 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 158879002739 pyridoxal 5'-phosphate binding site [chemical binding]; other site 158879002740 homodimer interface [polypeptide binding]; other site 158879002741 catalytic residue [active] 158879002742 OpgC protein; Region: OpgC_C; cl00792 158879002743 Acyltransferase family; Region: Acyl_transf_3; pfam01757 158879002744 Helix-turn-helix domains; Region: HTH; cl00088 158879002745 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: COG5632 158879002746 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 158879002747 amidase catalytic site [active] 158879002748 Zn binding residues [ion binding]; other site 158879002749 substrate binding site [chemical binding]; other site 158879002750 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: COG5632 158879002751 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl00743 158879002752 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 158879002753 Coenzyme A binding pocket [chemical binding]; other site 158879002754 Protein of unknown function (DUF2538); Region: DUF2538; pfam10804 158879002755 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 158879002756 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 158879002757 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 158879002758 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 158879002759 Subunit I/III interface [polypeptide binding]; other site 158879002760 Subunit III/IV interface [polypeptide binding]; other site 158879002761 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 158879002762 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 158879002763 D-pathway; other site 158879002764 Putative ubiquinol binding site [chemical binding]; other site 158879002765 Low-spin heme (heme b) binding site [chemical binding]; other site 158879002766 Putative water exit pathway; other site 158879002767 Binuclear center (heme o3/CuB) [ion binding]; other site 158879002768 K-pathway; other site 158879002769 Putative proton exit pathway; other site 158879002770 cytochrome aa3 quinol oxidase, subunit II; Region: QOXA; TIGR01432 158879002771 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 158879002772 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 158879002773 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 158879002774 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14175 158879002775 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 158879002776 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 158879002777 homodimer interface [polypeptide binding]; other site 158879002778 NADP binding site [chemical binding]; other site 158879002779 substrate binding site [chemical binding]; other site 158879002780 AIR carboxylase; Region: AIRC; cl00310 158879002781 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879002782 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 158879002783 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 158879002784 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 158879002785 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 158879002786 ATP binding site [chemical binding]; other site 158879002787 active site 158879002788 substrate binding site [chemical binding]; other site 158879002789 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 158879002790 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 158879002791 putative active site [active] 158879002792 catalytic triad [active] 158879002793 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 158879002794 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 158879002795 dimerization interface [polypeptide binding]; other site 158879002796 ATP binding site [chemical binding]; other site 158879002797 PurL subunit of the formylglycinamide ribonucleotide amidotransferase (FGAR-AT), second repeat. FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP; Region: PurL_repeat2; cd02204 158879002798 dimerization interface [polypeptide binding]; other site 158879002799 ATP binding site [chemical binding]; other site 158879002800 amidophosphoribosyltransferase; Provisional; Region: PRK07272 158879002801 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 158879002802 active site 158879002803 tetramer interface [polypeptide binding]; other site 158879002804 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 158879002805 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 158879002806 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 158879002807 dimerization interface [polypeptide binding]; other site 158879002808 putative ATP binding site [chemical binding]; other site 158879002809 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 158879002810 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 158879002811 active site 158879002812 substrate binding site [chemical binding]; other site 158879002813 cosubstrate binding site; other site 158879002814 catalytic site [active] 158879002815 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 158879002816 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 158879002817 purine monophosphate binding site [chemical binding]; other site 158879002818 dimer interface [polypeptide binding]; other site 158879002819 putative catalytic residues [active] 158879002820 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 158879002821 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 158879002822 phosphoribosylamine--glycine ligase; Provisional; Region: PRK13790 158879002823 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 158879002824 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 158879002825 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 158879002826 Cobalt transport protein; Region: CbiQ; cl00463 158879002827 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 158879002828 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 158879002829 Walker A/P-loop; other site 158879002830 ATP binding site [chemical binding]; other site 158879002831 Q-loop/lid; other site 158879002832 ABC transporter signature motif; other site 158879002833 Walker B; other site 158879002834 D-loop; other site 158879002835 H-loop/switch region; other site 158879002836 ABC-type transport system involved in cytochrome c biogenesis, ATPase component [Posttranslational modification, protein turnover, chaperones]; Region: CcmA; COG4133 158879002837 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 158879002838 Walker A/P-loop; other site 158879002839 ATP binding site [chemical binding]; other site 158879002840 Q-loop/lid; other site 158879002841 ABC transporter signature motif; other site 158879002842 Walker B; other site 158879002843 D-loop; other site 158879002844 H-loop/switch region; other site 158879002845 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; cl01943 158879002846 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 158879002847 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 158879002848 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 158879002849 dimerization domain swap beta strand [polypeptide binding]; other site 158879002850 regulatory protein interface [polypeptide binding]; other site 158879002851 active site 158879002852 regulatory phosphorylation site [posttranslational modification]; other site 158879002853 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 158879002854 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 158879002855 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 158879002856 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 158879002857 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 158879002858 catalytic residues [active] 158879002859 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 158879002860 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 158879002861 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 158879002862 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879002863 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 158879002864 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 158879002865 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 158879002866 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 158879002867 Protein of unknown function (DUF1447); Region: DUF1447; cl11492 158879002868 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 158879002869 active site 158879002870 catalytic residues [active] 158879002871 metal binding site [ion binding]; metal-binding site 158879002872 Putative cell-wall binding lipoprotein; Region: YkyA; pfam10368 158879002873 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 158879002874 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 158879002875 TPP-binding site [chemical binding]; other site 158879002876 tetramer interface [polypeptide binding]; other site 158879002877 heterodimer interface [polypeptide binding]; other site 158879002878 phosphorylation loop region [posttranslational modification] 158879002879 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 158879002880 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 158879002881 alpha subunit interface [polypeptide binding]; other site 158879002882 TPP binding site [chemical binding]; other site 158879002883 heterodimer interface [polypeptide binding]; other site 158879002884 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 158879002885 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 158879002886 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 158879002887 E3 interaction surface; other site 158879002888 lipoyl attachment site [posttranslational modification]; other site 158879002889 e3 binding domain; Region: E3_binding; pfam02817 158879002890 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 158879002891 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 158879002892 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879002893 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879002894 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 158879002895 Uncharacterised protein family (UPF0223); Region: UPF0223; cl11484 158879002896 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 158879002897 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 158879002898 non-specific DNA binding site [nucleotide binding]; other site 158879002899 salt bridge; other site 158879002900 sequence-specific DNA binding site [nucleotide binding]; other site 158879002901 Cupin domain; Region: Cupin_2; cl09118 158879002902 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 158879002903 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158879002904 Walker A/P-loop; other site 158879002905 ATP binding site [chemical binding]; other site 158879002906 Q-loop/lid; other site 158879002907 ABC transporter signature motif; other site 158879002908 Walker B; other site 158879002909 D-loop; other site 158879002910 H-loop/switch region; other site 158879002911 TOBE domain; Region: TOBE_2; cl01440 158879002912 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 158879002913 putative PBP binding loops; other site 158879002914 dimer interface [polypeptide binding]; other site 158879002915 ABC-ATPase subunit interface; other site 158879002916 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 158879002917 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 158879002918 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 158879002919 Protein of unknown function (DUF4064); Region: DUF4064; pfam13273 158879002920 Protein of unknown function (DUF4064); Region: DUF4064; pfam13273 158879002921 Natural resistance-associated macrophage protein; Region: Nramp; cl00836 158879002922 Protein of unknown function (DUF1054); Region: DUF1054; cl11544 158879002923 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 158879002924 active site 158879002925 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 158879002926 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 158879002927 G1 box; other site 158879002928 putative GEF interaction site [polypeptide binding]; other site 158879002929 GTP/Mg2+ binding site [chemical binding]; other site 158879002930 Switch I region; other site 158879002931 G2 box; other site 158879002932 G3 box; other site 158879002933 Switch II region; other site 158879002934 G4 box; other site 158879002935 G5 box; other site 158879002936 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 158879002937 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 158879002938 Uncharacterized protein conserved in bacteria (DUF2197); Region: DUF2197; cl11558 158879002939 Protein of unknown function (DUF1507); Region: DUF1507; cl11487 158879002940 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 158879002941 pyruvate carboxylase; Reviewed; Region: PRK12999 158879002942 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 158879002943 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 158879002944 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 158879002945 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 158879002946 active site 158879002947 catalytic residues [active] 158879002948 metal binding site [ion binding]; metal-binding site 158879002949 homodimer binding site [polypeptide binding]; other site 158879002950 Conserved carboxylase domain; Region: PYC_OADA; pfam02436 158879002951 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 158879002952 carboxyltransferase (CT) interaction site; other site 158879002953 biotinylation site [posttranslational modification]; other site 158879002954 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 158879002955 cytochrome c oxidase assembly protein; Provisional; Region: PTZ00127 158879002956 UbiA prenyltransferase family; Region: UbiA; cl00337 158879002957 Protein of unknown function (DUF420); Region: DUF420; cl00989 158879002958 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 158879002959 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 158879002960 Protein of unknown function (DUF964); Region: DUF964; cl01483 158879002961 Glycerophosphodiester phosphodiesterase domain of Streptomyces coelicolor cytoplasmic phosphodiesterases UgpQ2 and similar proteins; Region: GDPD_cytoplasmic_ScUgpQ2_like; cd08561 158879002962 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 158879002963 putative active site [active] 158879002964 catalytic site [active] 158879002965 putative metal binding site [ion binding]; other site 158879002966 Uncharacterized protein conserved in bacteria (DUF2129); Region: DUF2129; cl11453 158879002967 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 158879002968 S-adenosylmethionine binding site [chemical binding]; other site 158879002969 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 158879002970 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 158879002971 active site 158879002972 (T/H)XGH motif; other site 158879002973 Protein of unknown function (DUF795); Region: DUF795; pfam05636 158879002974 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 158879002975 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 158879002976 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 158879002977 heme uptake protein IsdB; Region: IsdB; TIGR03657 158879002978 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 158879002979 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cl02760 158879002980 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 158879002981 heme-binding site [chemical binding]; other site 158879002982 Gram positive anchor; Region: Gram_pos_anchor; cl15427 158879002983 Cell surface protein [Cell envelope biogenesis, outer membrane]; Region: COG5386 158879002984 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 158879002985 heme-binding site [chemical binding]; other site 158879002986 heme uptake protein IsdC; Region: IsdC; TIGR03656 158879002987 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 158879002988 heme-binding site [chemical binding]; other site 158879002989 sortase B signal domain, NPQTN class; Region: srtB_sig_NPQTN; TIGR03068 158879002990 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 158879002991 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 158879002992 intersubunit interface [polypeptide binding]; other site 158879002993 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 158879002994 ABC-ATPase subunit interface; other site 158879002995 dimer interface [polypeptide binding]; other site 158879002996 putative PBP binding regions; other site 158879002997 Sortase B (SrtB) or subfamily-2 sortases are membrane cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_B_2; cd05826 158879002998 active site 158879002999 catalytic site [active] 158879003000 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 158879003001 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 158879003002 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 158879003003 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 158879003004 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 158879003005 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 158879003006 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 158879003007 dimer interface [polypeptide binding]; other site 158879003008 motif 1; other site 158879003009 active site 158879003010 motif 2; other site 158879003011 motif 3; other site 158879003012 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 158879003013 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 158879003014 putative tRNA-binding site [nucleotide binding]; other site 158879003015 B3/4 domain; Region: B3_4; cl11458 158879003016 tRNA synthetase B5 domain; Region: B5; cl08394 158879003017 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 158879003018 dimer interface [polypeptide binding]; other site 158879003019 motif 1; other site 158879003020 motif 3; other site 158879003021 motif 2; other site 158879003022 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 158879003023 ribonuclease HIII; Provisional; Region: PRK00996 158879003024 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 158879003025 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 158879003026 RNA/DNA hybrid binding site [nucleotide binding]; other site 158879003027 active site 158879003028 Cell division protein ZapA; Region: ZapA; cl01146 158879003029 Colicin V production protein; Region: Colicin_V; cl00567 158879003030 hypothetical protein; Provisional; Region: PRK08609 158879003031 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 158879003032 active site 158879003033 primer binding site [nucleotide binding]; other site 158879003034 NTP binding site [chemical binding]; other site 158879003035 metal binding triad [ion binding]; metal-binding site 158879003036 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 158879003037 MutS2 homologs in bacteria and eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also...; Region: ABC_MutS2; cd03280 158879003038 Walker A/P-loop; other site 158879003039 ATP binding site [chemical binding]; other site 158879003040 Q-loop/lid; other site 158879003041 ABC transporter signature motif; other site 158879003042 Walker B; other site 158879003043 D-loop; other site 158879003044 H-loop/switch region; other site 158879003045 Smr domain; Region: Smr; cl02619 158879003046 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 158879003047 catalytic residues [active] 158879003048 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 158879003049 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 158879003050 GIY-YIG motif/motif A; other site 158879003051 active site 158879003052 catalytic site [active] 158879003053 putative DNA binding site [nucleotide binding]; other site 158879003054 metal binding site [ion binding]; metal-binding site 158879003055 UvrB/uvrC motif; Region: UVR; pfam02151 158879003056 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 158879003057 Succinate:quinone oxidoreductase (SQR) Type B subfamily 1, transmembrane subunit; composed of proteins similar to Bacillus subtilis SQR. SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. Bacillus subtilis...; Region: SQR_TypeB_1_TM; cd03497 158879003058 putative Iron-sulfur protein interface [polypeptide binding]; other site 158879003059 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 158879003060 proximal heme binding site [chemical binding]; other site 158879003061 distal heme binding site [chemical binding]; other site 158879003062 putative dimer interface [polypeptide binding]; other site 158879003063 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08641 158879003064 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879003065 domain; Region: Succ_DH_flav_C; pfam02910 158879003066 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK08640 158879003067 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 158879003068 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 158879003069 active site 158879003070 dimerization interface [polypeptide binding]; other site 158879003071 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 158879003072 active site 158879003073 metal binding site [ion binding]; metal-binding site 158879003074 homotetramer interface [polypeptide binding]; other site 158879003075 Extracellular fibrinogen binding protein C terminal; Region: efb-c; pfam12199 158879003076 formyl peptide receptor-like 1 inhibitory protein; Reviewed; Region: PRK13033 158879003077 Extracellular fibrinogen binding protein C terminal; Region: efb-c; pfam12199 158879003078 Staphylococcal complement inhibitor SCIN; Region: CompInhib_SCIN; pfam11546 158879003079 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 158879003080 Transposase; Region: DDE_Tnp_ISL3; pfam01610 158879003081 Leukocidin/Hemolysin toxin family; Region: Leukocidin; cl08468 158879003082 superantigen-like protein; Reviewed; Region: PRK13350 158879003083 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 158879003084 superantigen-like protein; Reviewed; Region: PRK13349 158879003085 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 158879003086 superantigen-like protein; Reviewed; Region: PRK13043 158879003087 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 158879003088 ornithine carbamoyltransferase; Provisional; Region: PRK04284 158879003089 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 158879003090 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879003091 carbamate kinase; Reviewed; Region: PRK12686 158879003092 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 158879003093 putative substrate binding site [chemical binding]; other site 158879003094 nucleotide binding site [chemical binding]; other site 158879003095 nucleotide binding site [chemical binding]; other site 158879003096 homodimer interface [polypeptide binding]; other site 158879003097 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 158879003098 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 158879003099 gating phenylalanine in ion channel; other site 158879003100 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 158879003101 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 158879003102 motif II; other site 158879003103 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 158879003104 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4365 158879003105 bacillithiol biosynthesis cysteine-adding enzyme BshC; Region: thiol_BshC; TIGR03998 158879003106 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2001 158879003107 MraZ protein; Region: MraZ; pfam02381 158879003108 MraZ protein; Region: MraZ; pfam02381 158879003109 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 158879003110 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 158879003111 Septum formation initiator; Region: DivIC; cl11433 158879003112 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 158879003113 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 158879003114 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 158879003115 PASTA domain of PBP2x-like proteins, first repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_1; cd06576 158879003116 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 158879003117 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 158879003118 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 158879003119 Mg++ binding site [ion binding]; other site 158879003120 putative catalytic motif [active] 158879003121 putative substrate binding site [chemical binding]; other site 158879003122 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 158879003123 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879003124 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 158879003125 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 158879003126 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 158879003127 Cell division protein FtsQ; Region: FtsQ; pfam03799 158879003128 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 158879003129 Cell division protein FtsA; Region: FtsA; cl11496 158879003130 Cell division protein FtsA; Region: FtsA; cl11496 158879003131 cell division protein FtsZ; Validated; Region: PRK09330 158879003132 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 158879003133 nucleotide binding site [chemical binding]; other site 158879003134 SulA interaction site; other site 158879003135 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 158879003136 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 158879003137 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 158879003138 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 158879003139 catalytic residue [active] 158879003140 Protein of unknown function (DUF552); Region: DUF552; cl00775 158879003141 YGGT family; Region: YGGT; cl00508 158879003142 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 158879003143 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 158879003144 RNA binding surface [nucleotide binding]; other site 158879003145 Cell division initiation protein [Cell division and chromosome partitioning]; Region: DivIVA; COG3599 158879003146 DivIVA domain; Region: DivI1A_domain; TIGR03544 158879003147 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 158879003148 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 158879003149 HIGH motif; other site 158879003150 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 158879003151 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 158879003152 active site 158879003153 KMSKS motif; other site 158879003154 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 158879003155 tRNA binding surface [nucleotide binding]; other site 158879003156 anticodon binding site; other site 158879003157 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 158879003158 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 158879003159 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 158879003160 active site 158879003161 metal binding site [ion binding]; metal-binding site 158879003162 Transposase domain (DUF772); Region: DUF772; cl12084 158879003163 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 158879003164 lipoprotein signal peptidase; Provisional; Region: PRK14787 158879003165 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 158879003166 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 158879003167 RNA binding surface [nucleotide binding]; other site 158879003168 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 158879003169 active site 158879003170 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 158879003171 uracil transporter; Provisional; Region: PRK10720 158879003172 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 158879003173 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 158879003174 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 158879003175 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879003176 dihydroorotase; Validated; Region: pyrC; PRK09357 158879003177 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 158879003178 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 158879003179 active site 158879003180 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 158879003181 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 158879003182 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 158879003183 catalytic site [active] 158879003184 subunit interface [polypeptide binding]; other site 158879003185 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 158879003186 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 158879003187 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 158879003188 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 158879003189 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 158879003190 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 158879003191 IMP binding site; other site 158879003192 dimer interface [polypeptide binding]; other site 158879003193 interdomain contacts; other site 158879003194 partial ornithine binding site; other site 158879003195 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 158879003196 active site 158879003197 dimer interface [polypeptide binding]; other site 158879003198 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 158879003199 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 158879003200 active site 158879003201 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 158879003202 dimer interface [polypeptide binding]; other site 158879003203 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 158879003204 Domain of unknown function (DUF814); Region: DUF814; pfam05670 158879003205 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 158879003206 catalytic site [active] 158879003207 G-X2-G-X-G-K; other site 158879003208 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 158879003209 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 158879003210 Flavoprotein; Region: Flavoprotein; cl08021 158879003211 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 158879003212 primosome assembly protein PriA; Validated; Region: PRK05580 158879003213 primosome assembly protein PriA; Validated; Region: PRK05580 158879003214 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 158879003215 ATP binding site [chemical binding]; other site 158879003216 putative Mg++ binding site [ion binding]; other site 158879003217 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158879003218 TM2 domain; Region: TM2; cl00984 158879003219 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 158879003220 active site 158879003221 catalytic residues [active] 158879003222 metal binding site [ion binding]; metal-binding site 158879003223 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 158879003224 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 158879003225 putative active site [active] 158879003226 substrate binding site [chemical binding]; other site 158879003227 putative cosubstrate binding site; other site 158879003228 catalytic site [active] 158879003229 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 158879003230 substrate binding site [chemical binding]; other site 158879003231 16S rRNA methyltransferase B; Provisional; Region: PRK14902 158879003232 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 158879003233 putative RNA binding site [nucleotide binding]; other site 158879003234 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 158879003235 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 158879003236 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 158879003237 FeS/SAM binding site; other site 158879003238 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 158879003239 Protein phosphatase 2C; Region: PP2C; pfam00481 158879003240 active site 158879003241 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 158879003242 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 158879003243 active site 158879003244 ATP binding site [chemical binding]; other site 158879003245 substrate binding site [chemical binding]; other site 158879003246 activation loop (A-loop); other site 158879003247 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 158879003248 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 158879003249 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 158879003250 PASTA domain of bacterial serine/threonine kinase pknB-like proteins. PknB is a member of a group of related transmembrane sensor kinases present in many gram positive bacteria, which has been shown to regulate cell shape in Mycobacterium tubercolosis; Region: PASTA_pknB; cd06577 158879003251 GTPase RsgA; Reviewed; Region: PRK00098 158879003252 YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs...; Region: YjeQ_engC; cd01854 158879003253 GTPase/OB domain interface [polypeptide binding]; other site 158879003254 GTPase/Zn-binding domain interface [polypeptide binding]; other site 158879003255 GTP/Mg2+ binding site [chemical binding]; other site 158879003256 G4 box; other site 158879003257 G5 box; other site 158879003258 G1 box; other site 158879003259 Switch I region; other site 158879003260 G2 box; other site 158879003261 G3 box; other site 158879003262 Switch II region; other site 158879003263 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 158879003264 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 158879003265 substrate binding site [chemical binding]; other site 158879003266 hexamer interface [polypeptide binding]; other site 158879003267 metal binding site [ion binding]; metal-binding site 158879003268 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 158879003269 Thiamine pyrophosphokinase; Region: TPK; cd07995 158879003270 active site 158879003271 dimerization interface [polypeptide binding]; other site 158879003272 thiamine binding site [chemical binding]; other site 158879003273 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 158879003274 Protein of unknown function (DUF322); Region: DUF322; cl00574 158879003275 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 158879003276 DAK2 domain; Region: Dak2; cl03685 158879003277 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 158879003278 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 158879003279 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 158879003280 generic binding surface II; other site 158879003281 ssDNA binding site; other site 158879003282 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 158879003283 ATP binding site [chemical binding]; other site 158879003284 putative Mg++ binding site [ion binding]; other site 158879003285 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 158879003286 nucleotide binding region [chemical binding]; other site 158879003287 ATP-binding site [chemical binding]; other site 158879003288 fatty acid biosynthesis transcriptional regulator; Provisional; Region: PRK04424 158879003289 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 158879003290 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 158879003291 Acyl transferase domain; Region: Acyl_transf_1; cl08282 158879003292 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 158879003293 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 158879003294 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 158879003295 NAD(P) binding site [chemical binding]; other site 158879003296 homotetramer interface [polypeptide binding]; other site 158879003297 homodimer interface [polypeptide binding]; other site 158879003298 active site 158879003299 Phosphopantetheine attachment site; Region: PP-binding; cl09936 158879003300 ribonuclease III; Reviewed; Region: rnc; PRK00102 158879003301 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 158879003302 dimerization interface [polypeptide binding]; other site 158879003303 active site 158879003304 metal binding site [ion binding]; metal-binding site 158879003305 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 158879003306 dsRNA binding site [nucleotide binding]; other site 158879003307 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 158879003308 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 158879003309 Walker A/P-loop; other site 158879003310 ATP binding site [chemical binding]; other site 158879003311 Q-loop/lid; other site 158879003312 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; cl00148 158879003313 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 158879003314 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 158879003315 ABC transporter signature motif; other site 158879003316 Walker B; other site 158879003317 D-loop; other site 158879003318 H-loop/switch region; other site 158879003319 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 158879003320 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 158879003321 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 158879003322 P loop; other site 158879003323 GTP binding site [chemical binding]; other site 158879003324 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cl15358 158879003325 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 158879003326 signal recognition particle protein; Provisional; Region: PRK10867 158879003327 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 158879003328 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 158879003329 P loop; other site 158879003330 GTP binding site [chemical binding]; other site 158879003331 Signal peptide binding domain; Region: SRP_SPB; pfam02978 158879003332 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 158879003333 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 158879003334 RimM N-terminal domain; Region: RimM; pfam01782 158879003335 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to produce...; Region: PRCH; cl09959 158879003336 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 158879003337 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 158879003338 Predicted membrane protein [Function unknown]; Region: COG4485 158879003339 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 158879003340 YlqF. Proteins of the YlqF family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. The...; Region: YlqF; cd01856 158879003341 GTP/Mg2+ binding site [chemical binding]; other site 158879003342 G4 box; other site 158879003343 G5 box; other site 158879003344 Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs); Region: Era_like; cd00880 158879003345 G1 box; other site 158879003346 G1 box; other site 158879003347 GTP/Mg2+ binding site [chemical binding]; other site 158879003348 Switch I region; other site 158879003349 Switch I region; other site 158879003350 G2 box; other site 158879003351 G2 box; other site 158879003352 Switch II region; other site 158879003353 G3 box; other site 158879003354 G3 box; other site 158879003355 Switch II region; other site 158879003356 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 158879003357 RNA/DNA hybrid binding site [nucleotide binding]; other site 158879003358 active site 158879003359 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 158879003360 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 158879003361 CoA-ligase; Region: Ligase_CoA; pfam00549 158879003362 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 158879003363 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879003364 CoA-ligase; Region: Ligase_CoA; cl02894 158879003365 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 158879003366 autolysin; Reviewed; Region: PRK06347 158879003367 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 158879003368 putative peptidoglycan binding site; other site 158879003369 NlpC/P60 family; Region: NLPC_P60; cl11438 158879003370 FemAB family; Region: FemAB; cl11444 158879003371 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 158879003372 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 158879003373 DNA topoisomerase I; Validated; Region: PRK05582 158879003374 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 158879003375 active site 158879003376 interdomain interaction site; other site 158879003377 putative metal-binding site [ion binding]; other site 158879003378 nucleotide binding site [chemical binding]; other site 158879003379 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 158879003380 domain I; other site 158879003381 DNA binding groove [nucleotide binding] 158879003382 phosphate binding site [ion binding]; other site 158879003383 domain II; other site 158879003384 domain III; other site 158879003385 nucleotide binding site [chemical binding]; other site 158879003386 catalytic site [active] 158879003387 domain IV; other site 158879003388 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 158879003389 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 158879003390 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 158879003391 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335; cl15440 158879003392 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 158879003393 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 158879003394 DNA binding site [nucleotide binding] 158879003395 Int/Topo IB signature motif; other site 158879003396 active site 158879003397 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 158879003398 active site 158879003399 HslU subunit interaction site [polypeptide binding]; other site 158879003400 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 158879003401 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 158879003402 Walker A motif; other site 158879003403 ATP binding site [chemical binding]; other site 158879003404 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158879003405 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 158879003406 transcriptional repressor CodY; Validated; Region: PRK04158 158879003407 CodY GAF-like domain; Region: CodY; pfam06018 158879003408 Helix-turn-helix domains; Region: HTH; cl00088 158879003409 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 158879003410 rRNA interaction site [nucleotide binding]; other site 158879003411 S8 interaction site; other site 158879003412 putative laminin-1 binding site; other site 158879003413 elongation factor Ts; Provisional; Region: tsf; PRK09377 158879003414 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 158879003415 Elongation factor TS; Region: EF_TS; pfam00889 158879003416 Elongation factor TS; Region: EF_TS; pfam00889 158879003417 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 158879003418 putative nucleotide binding site [chemical binding]; other site 158879003419 uridine monophosphate binding site [chemical binding]; other site 158879003420 homohexameric interface [polypeptide binding]; other site 158879003421 ribosome recycling factor; Reviewed; Region: frr; PRK00083 158879003422 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 158879003423 hinge region; other site 158879003424 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 158879003425 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cd00475 158879003426 catalytic residue [active] 158879003427 putative FPP diphosphate binding site; other site 158879003428 putative FPP binding hydrophobic cleft; other site 158879003429 dimer interface [polypeptide binding]; other site 158879003430 putative IPP diphosphate binding site; other site 158879003431 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 158879003432 RIP metalloprotease RseP; Region: TIGR00054 158879003433 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 158879003434 active site 158879003435 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 158879003436 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 158879003437 protein binding site [polypeptide binding]; other site 158879003438 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 158879003439 putative substrate binding region [chemical binding]; other site 158879003440 prolyl-tRNA synthetase; Provisional; Region: PRK09194 158879003441 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 158879003442 dimer interface [polypeptide binding]; other site 158879003443 motif 1; other site 158879003444 active site 158879003445 motif 2; other site 158879003446 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 158879003447 putative deacylase active site [active] 158879003448 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 158879003449 active site 158879003450 motif 3; other site 158879003451 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 158879003452 anticodon binding site; other site 158879003453 DNA polymerase III PolC; Validated; Region: polC; PRK00448 158879003454 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 158879003455 polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two...; Region: polC_OBF; cd04484 158879003456 generic binding surface II; other site 158879003457 generic binding surface I; other site 158879003458 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 158879003459 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 158879003460 active site 158879003461 substrate binding site [chemical binding]; other site 158879003462 catalytic site [active] 158879003463 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 158879003464 ribosome maturation protein RimP; Reviewed; Region: PRK00092 158879003465 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 158879003466 YxlS is a Bacillus subtilis gene of unknown function with two domains that each have an alpha/beta fold. The N-terminal domain is composed of two alpha-helices and a three-stranded beta-sheet, while the C-terminal domain is composed of one alpha-helix...; Region: YlxS_C; cd01734 158879003467 Sm1 motif; other site 158879003468 predicted subunit interaction site [polypeptide binding]; other site 158879003469 RNA binding pocket [nucleotide binding]; other site 158879003470 Sm2 motif; other site 158879003471 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 158879003472 NusA N-terminal domain; Region: NusA_N; pfam08529 158879003473 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 158879003474 RNA binding site [nucleotide binding]; other site 158879003475 homodimer interface [polypeptide binding]; other site 158879003476 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 158879003477 G-X-X-G motif; other site 158879003478 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cd00279 158879003479 putative RNA binding cleft [nucleotide binding]; other site 158879003480 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 158879003481 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 158879003482 translation initiation factor IF-2; Region: IF-2; TIGR00487 158879003483 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 158879003484 IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases; Region: IF2_eIF5B; cd01887 158879003485 G1 box; other site 158879003486 putative GEF interaction site [polypeptide binding]; other site 158879003487 GTP/Mg2+ binding site [chemical binding]; other site 158879003488 Switch I region; other site 158879003489 G2 box; other site 158879003490 G3 box; other site 158879003491 Switch II region; other site 158879003492 G4 box; other site 158879003493 G5 box; other site 158879003494 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 158879003495 Translation-initiation factor 2; Region: IF-2; pfam11987 158879003496 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 158879003497 Ribosome-binding factor A; Region: RBFA; cl00542 158879003498 tRNA pseudouridine synthase B; Provisional; Region: PRK14123 158879003499 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 158879003500 RNA binding site [nucleotide binding]; other site 158879003501 active site 158879003502 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 158879003503 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 158879003504 active site 158879003505 Riboflavin kinase; Region: Flavokinase; cl03312 158879003506 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 158879003507 16S/18S rRNA binding site [nucleotide binding]; other site 158879003508 S13e-L30e interaction site [polypeptide binding]; other site 158879003509 25S rRNA binding site [nucleotide binding]; other site 158879003510 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 158879003511 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 158879003512 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 158879003513 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 158879003514 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 158879003515 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 158879003516 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 158879003517 putative nucleic acid binding region [nucleotide binding]; other site 158879003518 G-X-X-G motif; other site 158879003519 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 158879003520 RNA binding site [nucleotide binding]; other site 158879003521 domain interface; other site 158879003522 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 158879003523 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 158879003524 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 158879003525 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 158879003526 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158879003527 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 158879003528 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 158879003529 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 158879003530 Helix-turn-helix domains; Region: HTH; cl00088 158879003531 UTRA domain; Region: UTRA; cl01230 158879003532 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 158879003533 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 158879003534 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 158879003535 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 158879003536 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 158879003537 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 158879003538 classical (c) SDRs; Region: SDR_c; cd05233 158879003539 NAD(P) binding site [chemical binding]; other site 158879003540 active site 158879003541 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 158879003542 Protein of unknown function (DUF3388); Region: DUF3388; pfam11868 158879003543 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 158879003544 non-specific DNA binding site [nucleotide binding]; other site 158879003545 salt bridge; other site 158879003546 sequence-specific DNA binding site [nucleotide binding]; other site 158879003547 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 158879003548 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 158879003549 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 158879003550 putative MPT binding site; other site 158879003551 recombinase A; Provisional; Region: recA; PRK09354 158879003552 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 158879003553 hexamer interface [polypeptide binding]; other site 158879003554 Walker A motif; other site 158879003555 ATP binding site [chemical binding]; other site 158879003556 Walker B motif; other site 158879003557 phosphodiesterase; Provisional; Region: PRK12704 158879003558 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 158879003559 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 158879003560 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 158879003561 putative active site [active] 158879003562 metal binding site [ion binding]; metal-binding site 158879003563 homodimer binding site [polypeptide binding]; other site 158879003564 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 158879003565 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 158879003566 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 158879003567 dimer interface [polypeptide binding]; other site 158879003568 PYR/PP interface [polypeptide binding]; other site 158879003569 TPP binding site [chemical binding]; other site 158879003570 substrate binding site [chemical binding]; other site 158879003571 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 158879003572 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 158879003573 TPP-binding site [chemical binding]; other site 158879003574 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 158879003575 Domain of unknown function DUF77; Region: DUF77; cl00307 158879003576 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14327 158879003577 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 158879003578 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 158879003579 FeS/SAM binding site; other site 158879003580 TRAM domain; Region: TRAM; cl01282 158879003581 Protein of unknown function (DUF964); Region: DUF964; cl01483 158879003582 Thiamine-precursor transporter protein (ThiW); Region: ThiW; cl01952 158879003583 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 158879003584 MutS domain I; Region: MutS_I; pfam01624 158879003585 MutS domain II; Region: MutS_II; pfam05188 158879003586 MutS family domain IV; Region: MutS_IV; pfam05190 158879003587 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 158879003588 Walker A/P-loop; other site 158879003589 ATP binding site [chemical binding]; other site 158879003590 Q-loop/lid; other site 158879003591 ABC transporter signature motif; other site 158879003592 Walker B; other site 158879003593 D-loop; other site 158879003594 H-loop/switch region; other site 158879003595 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 158879003596 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 158879003597 ATP binding site [chemical binding]; other site 158879003598 Mg2+ binding site [ion binding]; other site 158879003599 G-X-G motif; other site 158879003600 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 158879003601 ATP binding site [chemical binding]; other site 158879003602 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 158879003603 Glycerol-3-phosphate responsive antiterminator; Region: G3P_antiterm; cl00852 158879003604 similar to hypothetical protein 158879003605 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 158879003606 amphipathic channel; other site 158879003607 Asn-Pro-Ala signature motifs; other site 158879003608 glycerol kinase; Provisional; Region: glpK; PRK00047 158879003609 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 158879003610 N- and C-terminal domain interface [polypeptide binding]; other site 158879003611 active site 158879003612 MgATP binding site [chemical binding]; other site 158879003613 catalytic site [active] 158879003614 metal binding site [ion binding]; metal-binding site 158879003615 glycerol binding site [chemical binding]; other site 158879003616 homotetramer interface [polypeptide binding]; other site 158879003617 homodimer interface [polypeptide binding]; other site 158879003618 FBP binding site [chemical binding]; other site 158879003619 protein IIAGlc interface [polypeptide binding]; other site 158879003620 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 158879003621 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879003622 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 158879003623 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 158879003624 IPP transferase; Region: IPPT; cl00403 158879003625 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 158879003626 Hfq, an abundant, ubiquitous RNA-binding protein, functions as a pleiotrophic regulator of RNA metabolism in prokaryotes, required for transcription of some transcripts and degradation of others. Hfq binds small RNA molecules called riboregulators that...; Region: Hfq; cd01716 158879003627 Sm1 motif; other site 158879003628 intra - hexamer interaction site; other site 158879003629 inter - hexamer interaction site [polypeptide binding]; other site 158879003630 nucleotide binding pocket [chemical binding]; other site 158879003631 Sm2 motif; other site 158879003632 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 158879003633 catalytic residues [active] 158879003634 dimer interface [polypeptide binding]; other site 158879003635 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 158879003636 Restriction endonuclease; Region: Mrr_cat; cl00747 158879003637 HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual...; Region: HflX; cd01878 158879003638 G1 box; other site 158879003639 GTP/Mg2+ binding site [chemical binding]; other site 158879003640 Switch I region; other site 158879003641 G2 box; other site 158879003642 G3 box; other site 158879003643 Switch II region; other site 158879003644 G4 box; other site 158879003645 G5 box; other site 158879003646 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 158879003647 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 158879003648 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 158879003649 DNA binding residues [nucleotide binding] 158879003650 putative dimer interface [polypeptide binding]; other site 158879003651 glutamine synthetase, type I; Region: GlnA; TIGR00653 158879003652 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 158879003653 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 158879003654 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 158879003655 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 158879003656 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 158879003657 catalytic residue [active] 158879003658 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 158879003659 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 158879003660 putative active site [active] 158879003661 catalytic site [active] 158879003662 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 158879003663 putative active site [active] 158879003664 catalytic site [active] 158879003665 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 158879003666 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 158879003667 Walker A/P-loop; other site 158879003668 ATP binding site [chemical binding]; other site 158879003669 Q-loop/lid; other site 158879003670 ABC transporter signature motif; other site 158879003671 Walker B; other site 158879003672 D-loop; other site 158879003673 H-loop/switch region; other site 158879003674 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 158879003675 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 158879003676 Histidine kinase; Region: HisKA_3; pfam07730 158879003677 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 158879003678 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 158879003679 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 158879003680 active site 158879003681 phosphorylation site [posttranslational modification] 158879003682 intermolecular recognition site; other site 158879003683 dimerization interface [polypeptide binding]; other site 158879003684 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 158879003685 DNA binding residues [nucleotide binding] 158879003686 dimerization interface [polypeptide binding]; other site 158879003687 Staphylococcal nuclease homologues; Region: SNc; smart00318 158879003688 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 158879003689 Catalytic site; other site 158879003690 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158879003691 aspartate kinase; Reviewed; Region: PRK09034 158879003692 AAK_AKiii-YclM-BS: Amino Acid Kinase Superfamily (AAK), AKiii-YclM-BS; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII, a monofunctional class enzyme found in...; Region: AAK_AKiii-YclM-BS; cd04245 158879003693 putative catalytic residues [active] 158879003694 putative nucleotide binding site [chemical binding]; other site 158879003695 putative aspartate binding site [chemical binding]; other site 158879003696 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_1; cd04911 158879003697 allosteric regulatory residue; other site 158879003698 ACT domains located C-terminal to the catalytic domain of the lysine plus threonine-sensitive aspartokinase isoenzyme AKIII; Region: ACT_AKiii-YclM-BS_2; cd04916 158879003699 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 158879003700 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879003701 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 158879003702 threonine synthase; Reviewed; Region: PRK06721 158879003703 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 158879003704 homodimer interface [polypeptide binding]; other site 158879003705 pyridoxal 5'-phosphate binding site [chemical binding]; other site 158879003706 catalytic residue [active] 158879003707 homoserine kinase; Provisional; Region: PRK01212 158879003708 GHMP kinases N terminal domain; Region: GHMP_kinases_N; cl08256 158879003709 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 158879003710 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 158879003711 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 158879003712 active site 158879003713 motif I; other site 158879003714 motif II; other site 158879003715 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 158879003716 Amino acid permease; Region: AA_permease; cl00524 158879003717 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 158879003718 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 158879003719 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 158879003720 tetramer interface [polypeptide binding]; other site 158879003721 heme binding pocket [chemical binding]; other site 158879003722 NADPH binding site [chemical binding]; other site 158879003723 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 158879003724 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 158879003725 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 158879003726 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 158879003727 active site 158879003728 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 158879003729 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 158879003730 Helix-turn-helix domains; Region: HTH; cl00088 158879003731 LexA repressor; Validated; Region: PRK00215 158879003732 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 158879003733 Catalytic site [active] 158879003734 Bacterial protein of unknown function (DUF896); Region: DUF896; cl01722 158879003735 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 158879003736 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 158879003737 TPP-binding site [chemical binding]; other site 158879003738 dimer interface [polypeptide binding]; other site 158879003739 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 158879003740 PYR/PP interface [polypeptide binding]; other site 158879003741 dimer interface [polypeptide binding]; other site 158879003742 TPP binding site [chemical binding]; other site 158879003743 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 158879003744 Uncharacterised protein family (UPF0154); Region: UPF0154; cl01536 158879003745 Protein of unknown function (DUF1453); Region: DUF1453; cl02009 158879003746 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 158879003747 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 158879003748 active site 158879003749 metal binding site [ion binding]; metal-binding site 158879003750 DNA binding site [nucleotide binding] 158879003751 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 158879003752 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 158879003753 SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini; Region: ABC_sbcCD; cd03279 158879003754 Walker A/P-loop; other site 158879003755 ATP binding site [chemical binding]; other site 158879003756 Q-loop/lid; other site 158879003757 SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends. They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini; Region: ABC_sbcCD; cd03279 158879003758 ABC transporter signature motif; other site 158879003759 Walker B; other site 158879003760 D-loop; other site 158879003761 H-loop/switch region; other site 158879003762 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 158879003763 BCCT family transporter; Region: BCCT; cl00569 158879003764 aconitate hydratase; Validated; Region: PRK09277 158879003765 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 158879003766 substrate binding site [chemical binding]; other site 158879003767 ligand binding site [chemical binding]; other site 158879003768 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 158879003769 substrate binding site [chemical binding]; other site 158879003770 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 158879003771 active site 158879003772 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 158879003773 Domain of unknown function (DUF205); Region: DUF205; cl00410 158879003774 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 158879003775 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 158879003776 ATP binding site [chemical binding]; other site 158879003777 Mg2+ binding site [ion binding]; other site 158879003778 G-X-G motif; other site 158879003779 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 158879003780 anchoring element; other site 158879003781 dimer interface [polypeptide binding]; other site 158879003782 ATP binding site [chemical binding]; other site 158879003783 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 158879003784 active site 158879003785 putative metal-binding site [ion binding]; other site 158879003786 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 158879003787 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 158879003788 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 158879003789 CAP-like domain; other site 158879003790 active site 158879003791 primary dimer interface [polypeptide binding]; other site 158879003792 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 158879003793 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 158879003794 CAT RNA binding domain; Region: CAT_RBD; cl03904 158879003795 PRD domain; Region: PRD; cl15445 158879003796 PRD domain; Region: PRD; cl15445 158879003797 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 158879003798 Domain of unknown function DUF20; Region: UPF0118; cl00465 158879003799 Predicted integral membrane protein [Function unknown]; Region: COG0392 158879003800 Uncharacterised protein family (UPF0104); Region: UPF0104; cl04219 158879003801 Uncharacterized conserved protein [Function unknown]; Region: COG2898 158879003802 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 158879003803 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 158879003804 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 158879003805 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cd00491 158879003806 active site 1 [active] 158879003807 dimer interface [polypeptide binding]; other site 158879003808 hexamer interface [polypeptide binding]; other site 158879003809 active site 2 [active] 158879003810 DNA polymerase IV; Reviewed; Region: PRK03103 158879003811 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 158879003812 active site 158879003813 DNA binding site [nucleotide binding] 158879003814 prephenate dehydrogenase; Validated; Region: PRK06545 158879003815 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879003816 C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH); Region: ACT_PDH-BS; cd04909 158879003817 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 158879003818 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 158879003819 putative oligomer interface [polypeptide binding]; other site 158879003820 putative active site [active] 158879003821 metal binding site [ion binding]; metal-binding site 158879003822 anthranilate synthase component I; Provisional; Region: PRK13567 158879003823 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 158879003824 chorismate binding enzyme; Region: Chorismate_bind; cl10555 158879003825 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 158879003826 Glutamine amidotransferase class-I; Region: GATase; pfam00117 158879003827 glutamine binding [chemical binding]; other site 158879003828 catalytic triad [active] 158879003829 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 158879003830 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 158879003831 Indole-3-glycerol phosphate synthase (IGPS); an enzyme in the tryptophan biosynthetic pathway, catalyzing the ring closure reaction of 1-(o-carboxyphenylamino)-1-deoxyribulose-5-phosphate (CdRP) to indole-3-glycerol phosphate (IGP), accompanied by the...; Region: IGPS; cd00331 158879003832 active site 158879003833 ribulose/triose binding site [chemical binding]; other site 158879003834 phosphate binding site [ion binding]; other site 158879003835 substrate (anthranilate) binding pocket [chemical binding]; other site 158879003836 product (indole) binding pocket [chemical binding]; other site 158879003837 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 158879003838 active site 158879003839 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 158879003840 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 158879003841 pyridoxal 5'-phosphate binding site [chemical binding]; other site 158879003842 catalytic residue [active] 158879003843 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 158879003844 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 158879003845 substrate binding site [chemical binding]; other site 158879003846 active site 158879003847 catalytic residues [active] 158879003848 heterodimer interface [polypeptide binding]; other site 158879003849 FemAB family; Region: FemAB; cl11444 158879003850 FemAB family; Region: FemAB; cl11444 158879003851 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 158879003852 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 158879003853 active site 158879003854 motif I; other site 158879003855 motif II; other site 158879003856 SWIM zinc finger; Region: SWIM; cl15408 158879003857 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 158879003858 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 158879003859 Walker A/P-loop; other site 158879003860 ATP binding site [chemical binding]; other site 158879003861 Q-loop/lid; other site 158879003862 ABC transporter signature motif; other site 158879003863 Walker B; other site 158879003864 D-loop; other site 158879003865 H-loop/switch region; other site 158879003866 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 158879003867 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 158879003868 Walker A/P-loop; other site 158879003869 ATP binding site [chemical binding]; other site 158879003870 Q-loop/lid; other site 158879003871 ABC transporter signature motif; other site 158879003872 Walker B; other site 158879003873 D-loop; other site 158879003874 H-loop/switch region; other site 158879003875 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 158879003876 dimer interface [polypeptide binding]; other site 158879003877 conserved gate region; other site 158879003878 putative PBP binding loops; other site 158879003879 ABC-ATPase subunit interface; other site 158879003880 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 158879003881 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 158879003882 dimer interface [polypeptide binding]; other site 158879003883 conserved gate region; other site 158879003884 putative PBP binding loops; other site 158879003885 ABC-ATPase subunit interface; other site 158879003886 bifunctional preprotein translocase subunit SecD/SecF; Provisional; Region: PRK14726 158879003887 oligoendopeptidase F; Region: pepF; TIGR00181 158879003888 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_4; cd09609 158879003889 active site 158879003890 Zn binding site [ion binding]; other site 158879003891 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 158879003892 PhoU domain; Region: PhoU; pfam01895 158879003893 PhoU domain; Region: PhoU; pfam01895 158879003894 phosphate transporter ATP-binding protein; Provisional; Region: PRK14238 158879003895 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 158879003896 Walker A/P-loop; other site 158879003897 ATP binding site [chemical binding]; other site 158879003898 Q-loop/lid; other site 158879003899 ABC transporter signature motif; other site 158879003900 Walker B; other site 158879003901 D-loop; other site 158879003902 H-loop/switch region; other site 158879003903 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 158879003904 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 158879003905 dimer interface [polypeptide binding]; other site 158879003906 conserved gate region; other site 158879003907 putative PBP binding loops; other site 158879003908 ABC-ATPase subunit interface; other site 158879003909 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 158879003910 dimer interface [polypeptide binding]; other site 158879003911 conserved gate region; other site 158879003912 ABC-ATPase subunit interface; other site 158879003913 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 158879003914 Transposase domain (DUF772); Region: DUF772; cl12084 158879003915 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 158879003916 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 158879003917 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 158879003918 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 158879003919 ABC transporter; Region: ABC_tran_2; pfam12848 158879003920 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 158879003921 aspartate kinase; Reviewed; Region: PRK06635 158879003922 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 158879003923 putative nucleotide binding site [chemical binding]; other site 158879003924 putative catalytic residues [active] 158879003925 putative Mg ion binding site [ion binding]; other site 158879003926 putative aspartate binding site [chemical binding]; other site 158879003927 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII and related proteins; Region: ACT_AK-LysC-DapG-like_1; cd04891 158879003928 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AK-LysC-DapG-like_2; cd04923 158879003929 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 158879003930 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879003931 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 158879003932 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 158879003933 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 158879003934 dimer interface [polypeptide binding]; other site 158879003935 active site 158879003936 catalytic residue [active] 158879003937 dihydrodipicolinate reductase; Provisional; Region: PRK00048 158879003938 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879003939 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 158879003940 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapD_N; pfam08503 158879003941 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 158879003942 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 158879003943 active site 158879003944 trimer interface [polypeptide binding]; other site 158879003945 substrate binding site [chemical binding]; other site 158879003946 CoA binding site [chemical binding]; other site 158879003947 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 158879003948 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 158879003949 metal binding site [ion binding]; metal-binding site 158879003950 dimer interface [polypeptide binding]; other site 158879003951 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 158879003952 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 158879003953 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 158879003954 catalytic residue [active] 158879003955 diaminopimelate decarboxylase; Region: lysA; TIGR01048 158879003956 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 158879003957 active site 158879003958 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 158879003959 substrate binding site [chemical binding]; other site 158879003960 catalytic residues [active] 158879003961 dimer interface [polypeptide binding]; other site 158879003962 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 158879003963 DNA-binding site [nucleotide binding]; DNA binding site 158879003964 RNA-binding motif; other site 158879003965 Protein of unknown function (DUF1033); Region: DUF1033; cl11549 158879003966 Acylphosphatase; Region: Acylphosphatase; cl00551 158879003967 5-bromo-4-chloroindolyl phosphate hydrolysis protein; Region: Halogen_Hydrol; cl02059 158879003968 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 158879003969 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 158879003970 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 158879003971 norD type: Denitrifying bacteria contain both membrane bound and periplasmic nitrate reductases. Denitrification plays a major role in completing the nitrogen cycle by converting nitrate or nitrite to nitrogen gas. The pathway for microbial...; Region: vWA_norD_type; cd01454 158879003972 metal ion-dependent adhesion site (MIDAS); other site 158879003973 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 158879003974 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 158879003975 Walker A motif; other site 158879003976 ATP binding site [chemical binding]; other site 158879003977 Walker B motif; other site 158879003978 arginine finger; other site 158879003979 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 158879003980 active site 158879003981 metal binding site [ion binding]; metal-binding site 158879003982 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 158879003983 active site 158879003984 metal binding site [ion binding]; metal-binding site 158879003985 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 158879003986 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 158879003987 E3 interaction surface; other site 158879003988 lipoyl attachment site [posttranslational modification]; other site 158879003989 e3 binding domain; Region: E3_binding; pfam02817 158879003990 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 158879003991 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 158879003992 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 158879003993 TPP-binding site [chemical binding]; other site 158879003994 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; cl00240 158879003995 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 158879003996 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 158879003997 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 158879003998 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 158879003999 dimer interface [polypeptide binding]; other site 158879004000 phosphorylation site [posttranslational modification] 158879004001 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 158879004002 ATP binding site [chemical binding]; other site 158879004003 G-X-G motif; other site 158879004004 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 158879004005 DNA binding site [nucleotide binding] 158879004006 Response regulator receiver domain; Region: Response_reg; pfam00072 158879004007 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 158879004008 active site 158879004009 phosphorylation site [posttranslational modification] 158879004010 intermolecular recognition site; other site 158879004011 dimerization interface [polypeptide binding]; other site 158879004012 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 158879004013 active site 158879004014 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 158879004015 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 158879004016 active site 158879004017 homodimer interface [polypeptide binding]; other site 158879004018 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 158879004019 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 158879004020 C-terminal peptidase (prc); Region: prc; TIGR00225 158879004021 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 158879004022 protein binding site [polypeptide binding]; other site 158879004023 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 158879004024 Catalytic dyad [active] 158879004025 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 158879004026 Protein of unknown function (DUF1250); Region: DUF1250; cl11485 158879004027 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cl00162 158879004028 HPr interaction site; other site 158879004029 glycerol kinase (GK) interaction site [polypeptide binding]; other site 158879004030 active site 158879004031 phosphorylation site [posttranslational modification] 158879004032 SelR domain; Region: SelR; cl00369 158879004033 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 158879004034 Uncharacterised protein, DegV family COG1307; Region: DegV; cl00577 158879004035 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 158879004036 folate binding site [chemical binding]; other site 158879004037 NADP+ binding site [chemical binding]; other site 158879004038 Thymidylate synthase and pyrimidine hydroxymethylase: Thymidylate synthase (TS) and deoxycytidylate hydroxymethylase (dCMP-HMase) are homologs that catalyze analogous alkylation of C5 of pyrimidine nucleotides. Both enzymes are involved in the...; Region: TS_Pyrimidine_HMase; cd00351 158879004039 dimerization interface [polypeptide binding]; other site 158879004040 active site 158879004041 Protein of unknown function (DUF1094); Region: DUF1094; pfam06491 158879004042 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; cl07364 158879004043 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 158879004044 HEAT repeat; Region: HEAT; pfam02985 158879004045 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; cl07364 158879004046 Protein of unknown function (DUF2602); Region: DUF2602; pfam10782 158879004047 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 158879004048 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 158879004049 RNA/DNA hybrid binding site [nucleotide binding]; other site 158879004050 active site 158879004051 GA module; Region: GA; cl08325 158879004052 GA module; Region: GA; cl08325 158879004053 GA module; Region: GA; cl08325 158879004054 GA module; Region: GA; cl08325 158879004055 GA module; Region: GA; cl08325 158879004056 GA module; Region: GA; cl08325 158879004057 GA module; Region: GA; cl08325 158879004058 GA module; Region: GA; cl08325 158879004059 GA module; Region: GA; cl08325 158879004060 GA module; Region: GA; cl08325 158879004061 GA module; Region: GA; cl08325 158879004062 GA module; Region: GA; cl08325 158879004063 GA module; Region: GA; cl08325 158879004064 GA module; Region: GA; cl08325 158879004065 GA module; Region: GA; cl08325 158879004066 GA module; Region: GA; cl08325 158879004067 GA module; Region: GA; cl08325 158879004068 GA module; Region: GA; cl08325 158879004069 GA module; Region: GA; cl08325 158879004070 GA module; Region: GA; cl08325 158879004071 GA module; Region: GA; cl08325 158879004072 GA module; Region: GA; cl08325 158879004073 GA module; Region: GA; cl08325 158879004074 GA module; Region: GA; cl08325 158879004075 GA module; Region: GA; cl08325 158879004076 GA module; Region: GA; cl08325 158879004077 GA module; Region: GA; cl08325 158879004078 GA module; Region: GA; cl08325 158879004079 GA module; Region: GA; cl08325 158879004080 GA module; Region: GA; cl08325 158879004081 GA module; Region: GA; cl08325 158879004082 chromosome segregation protein; Provisional; Region: PRK02224 158879004083 GA module; Region: GA; cl08325 158879004084 GA module; Region: GA; cl08325 158879004085 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 158879004086 GA module; Region: GA; cl08325 158879004087 GA module; Region: GA; cl08325 158879004088 GA module; Region: GA; cl08325 158879004089 GA module; Region: GA; cl08325 158879004090 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 158879004091 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 158879004092 Transmembrane protein; Region: Macoilin; pfam09726 158879004093 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 158879004094 GA module; Region: GA; cl08325 158879004095 Uncharacterized Sugar-binding Domain; Region: FIVAR; pfam07554 158879004096 GA module; Region: GA; cl08325 158879004097 GA module; Region: GA; cl08325 158879004098 Uncharacterized Sugar-binding Domain; Region: FIVAR; pfam07554 158879004099 GA module; Region: GA; cl08325 158879004100 Uncharacterized Sugar-binding Domain; Region: FIVAR; pfam07554 158879004101 GA module; Region: GA; cl08325 158879004102 Uncharacterized Sugar-binding Domain; Region: FIVAR; pfam07554 158879004103 GA module; Region: GA; cl08325 158879004104 Uncharacterized Sugar-binding Domain; Region: FIVAR; pfam07554 158879004105 GA module; Region: GA; cl08325 158879004106 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 158879004107 Amino acid permease; Region: AA_permease; cl00524 158879004108 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 158879004109 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 158879004110 tetramer interface [polypeptide binding]; other site 158879004111 pyridoxal 5'-phosphate binding site [chemical binding]; other site 158879004112 catalytic residue [active] 158879004113 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 158879004114 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 158879004115 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879004116 5'-3' exonuclease; Region: 53EXOc; smart00475 158879004117 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 158879004118 active site 158879004119 metal binding site 1 [ion binding]; metal-binding site 158879004120 putative 5' ssDNA interaction site; other site 158879004121 metal binding site 3; metal-binding site 158879004122 metal binding site 2 [ion binding]; metal-binding site 158879004123 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 158879004124 putative DNA binding site [nucleotide binding]; other site 158879004125 putative metal binding site [ion binding]; other site 158879004126 Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs); Region: Era_like; cd00880 158879004127 G1 box; other site 158879004128 GTP/Mg2+ binding site [chemical binding]; other site 158879004129 Switch I region; other site 158879004130 G2 box; other site 158879004131 Switch II region; other site 158879004132 G3 box; other site 158879004133 Predicted GTPases (dynamin-related) [General function prediction only]; Region: COG0699 158879004134 G4 box; other site 158879004135 Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs); Region: Era_like; cd00880 158879004136 G1 box; other site 158879004137 GTP/Mg2+ binding site [chemical binding]; other site 158879004138 Switch I region; other site 158879004139 G2 box; other site 158879004140 Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs); Region: Era_like; cd00880 158879004141 Switch II region; other site 158879004142 G3 box; other site 158879004143 G4 box; other site 158879004144 G5 box; other site 158879004145 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 158879004146 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 158879004147 THUMP domain; Region: THUMP; cl12076 158879004148 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 158879004149 cell division protein GpsB; Provisional; Region: PRK14127 158879004150 DivIVA domain; Region: DivI1A_domain; TIGR03544 158879004151 Protein of unknown function (DUF1273); Region: DUF1273; cl01859 158879004152 Bacterial domain of unknown function (DUF1798); Region: DUF1798; pfam08807 158879004153 Recombination protein U; Region: RecU; cl01314 158879004154 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 158879004155 Transglycosylase; Region: Transgly; cl07896 158879004156 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 158879004157 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 158879004158 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 158879004159 minor groove reading motif; other site 158879004160 helix-hairpin-helix signature motif; other site 158879004161 substrate binding pocket [chemical binding]; other site 158879004162 active site 158879004163 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 158879004164 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 158879004165 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 158879004166 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 158879004167 AsnRS_cyto_like_N: N-terminal, anticodon recognition domain of the type found in human and Saccharomyces cerevisiae cytoplasmic asparaginyl-tRNA synthetase (AsnRS), in Brugia malayai AsnRs and, in various putative bacterial AsnRSs. This domain is a...; Region: AsnRS_cyto_like_N; cd04323 158879004168 putative dimer interface [polypeptide binding]; other site 158879004169 putative anticodon binding site; other site 158879004170 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 158879004171 homodimer interface [polypeptide binding]; other site 158879004172 motif 1; other site 158879004173 motif 2; other site 158879004174 active site 158879004175 motif 3; other site 158879004176 DnaQ family exonuclease/DinG family helicase, putative; Region: dinG_rel; TIGR01407 158879004177 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 158879004178 active site 158879004179 substrate binding site [chemical binding]; other site 158879004180 catalytic site [active] 158879004181 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158879004182 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158879004183 Helix-turn-helix domains; Region: HTH; cl00088 158879004184 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 158879004185 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 158879004186 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 158879004187 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 158879004188 active site 158879004189 NTP binding site [chemical binding]; other site 158879004190 metal binding triad [ion binding]; metal-binding site 158879004191 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 158879004192 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 158879004193 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_5; cd04962 158879004194 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 158879004195 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; cl01049 158879004196 Protein of unknown function (DUF1405); Region: DUF1405; cl01798 158879004197 Uncharacterized conserved protein [Function unknown]; Region: COG5582 158879004198 UPF0302 domain; Region: UPF0302; pfam08864 158879004199 IDEAL domain; Region: IDEAL; cl07452 158879004200 Vi polysaccharide biosynthesis protein TviE; Provisional; Region: PRK15179 158879004201 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 158879004202 binding surface 158879004203 TPR motif; other site 158879004204 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 158879004205 binding surface 158879004206 TPR motif; other site 158879004207 tetratricopeptide repeat protein; Provisional; Region: PRK11788 158879004208 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 158879004209 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 158879004210 hinge; other site 158879004211 active site 158879004212 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 158879004213 active site 158879004214 NAD binding site [chemical binding]; other site 158879004215 metal binding site [ion binding]; metal-binding site 158879004216 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 158879004217 Tetramer interface [polypeptide binding]; other site 158879004218 active site 158879004219 FMN-binding site [chemical binding]; other site 158879004220 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 158879004221 active site 158879004222 multimer interface [polypeptide binding]; other site 158879004223 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 158879004224 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 158879004225 substrate binding pocket [chemical binding]; other site 158879004226 chain length determination region; other site 158879004227 substrate-Mg2+ binding site; other site 158879004228 catalytic residues [active] 158879004229 aspartate-rich region 1; other site 158879004230 active site lid residues [active] 158879004231 aspartate-rich region 2; other site 158879004232 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 158879004233 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 158879004234 S-adenosylmethionine binding site [chemical binding]; other site 158879004235 Heptaprenyl diphosphate synthase (HEPPP synthase) subunit 1; Region: HEPPP_synt_1; pfam07307 158879004236 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 158879004237 IHF dimer interface [polypeptide binding]; other site 158879004238 IHF - DNA interface [nucleotide binding]; other site 158879004239 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 158879004240 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879004241 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 158879004242 GTP-binding protein Der; Reviewed; Region: PRK00093 158879004243 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an...; Region: EngA1; cd01894 158879004244 G1 box; other site 158879004245 GTP/Mg2+ binding site [chemical binding]; other site 158879004246 Switch I region; other site 158879004247 G2 box; other site 158879004248 Switch II region; other site 158879004249 G3 box; other site 158879004250 G4 box; other site 158879004251 G5 box; other site 158879004252 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an...; Region: EngA2; cd01895 158879004253 G1 box; other site 158879004254 GTP/Mg2+ binding site [chemical binding]; other site 158879004255 Switch I region; other site 158879004256 G2 box; other site 158879004257 G3 box; other site 158879004258 Switch II region; other site 158879004259 G4 box; other site 158879004260 G5 box; other site 158879004261 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 158879004262 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 158879004263 RNA binding site [nucleotide binding]; other site 158879004264 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 158879004265 RNA binding site [nucleotide binding]; other site 158879004266 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 158879004267 RNA binding site [nucleotide binding]; other site 158879004268 S1_RPS1_repeat_hs4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_hs4; cd05692 158879004269 RNA binding site [nucleotide binding]; other site 158879004270 similar to hypothetical protein 158879004271 cytidylate kinase; Provisional; Region: cmk; PRK00023 158879004272 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 158879004273 CMP-binding site; other site 158879004274 The sites determining sugar specificity; other site 158879004275 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 158879004276 active site 158879004277 homotetramer interface [polypeptide binding]; other site 158879004278 homodimer interface [polypeptide binding]; other site 158879004279 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 158879004280 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879004281 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879004282 Lysin domain, found in a variety of enzymes involved in bacterial cell wall degradation. This domain may have a general peptidoglycan binding function; Region: LysM; cl00107 158879004283 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 158879004284 ATP binding site [chemical binding]; other site 158879004285 putative Mg++ binding site [ion binding]; other site 158879004286 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 158879004287 nucleotide binding region [chemical binding]; other site 158879004288 ATP-binding site [chemical binding]; other site 158879004289 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4955 158879004290 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 158879004291 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 158879004292 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 158879004293 Protein of unknown function (DUF1672); Region: DUF1672; pfam07901 158879004294 Protein of unknown function (DUF1672); Region: DUF1672; pfam07901 158879004295 Protein of unknown function (DUF1672); Region: DUF1672; pfam07901 158879004296 V-type ATPase 116kDa subunit family; Region: V_ATPase_I; pfam01496 158879004297 Protein of unknown function (DUF1672); Region: DUF1672; pfam07901 158879004298 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 158879004299 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 158879004300 dimerization interface [polypeptide binding]; other site 158879004301 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 158879004302 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 158879004303 dimer interface [polypeptide binding]; other site 158879004304 phosphorylation site [posttranslational modification] 158879004305 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 158879004306 ATP binding site [chemical binding]; other site 158879004307 Mg2+ binding site [ion binding]; other site 158879004308 G-X-G motif; other site 158879004309 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 158879004310 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 158879004311 active site 158879004312 phosphorylation site [posttranslational modification] 158879004313 intermolecular recognition site; other site 158879004314 dimerization interface [polypeptide binding]; other site 158879004315 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 158879004316 DNA binding site [nucleotide binding] 158879004317 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 158879004318 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 158879004319 RNA binding surface [nucleotide binding]; other site 158879004320 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 158879004321 active site 158879004322 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 158879004323 ScpA/B protein; Region: ScpA_ScpB; cl00598 158879004324 Domain of unknown function (DUF309); Region: DUF309; cl00667 158879004325 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 158879004326 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 158879004327 Int/Topo IB signature motif; other site 158879004328 active site 158879004329 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 158879004330 metal binding site 2 [ion binding]; metal-binding site 158879004331 putative DNA binding helix; other site 158879004332 metal binding site 1 [ion binding]; metal-binding site 158879004333 dimer interface [polypeptide binding]; other site 158879004334 structural Zn2+ binding site [ion binding]; other site 158879004335 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 158879004336 dimer interface [polypeptide binding]; other site 158879004337 ADP-ribose binding site [chemical binding]; other site 158879004338 active site 158879004339 nudix motif; other site 158879004340 metal binding site [ion binding]; metal-binding site 158879004341 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 158879004342 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 158879004343 active site 158879004344 catalytic tetrad [active] 158879004345 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 158879004346 classical (c) SDRs; Region: SDR_c; cd05233 158879004347 NAD(P) binding site [chemical binding]; other site 158879004348 active site 158879004349 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879004350 pyrroline-5-carboxylate reductase; Region: proC; TIGR00112 158879004351 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 158879004352 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 158879004353 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 158879004354 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 158879004355 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 158879004356 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 158879004357 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 158879004358 Alpha amylase catalytic domain found in Sucrose isomerases, oligo-1,6-glucosidase (also called isomaltase; sucrase-isomaltase; alpha-limit dextrinase), dextran glucosidase (also called glucan 1,6-alpha-glucosidase), and related proteins; Region: AmyAc_SI_OligoGlu_DGase; cd11333 158879004359 Ca binding site [ion binding]; other site 158879004360 active site 158879004361 catalytic site [active] 158879004362 Transcriptional regulators [Transcription]; Region: PurR; COG1609 158879004363 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 158879004364 DNA binding site [nucleotide binding] 158879004365 domain linker motif; other site 158879004366 Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors; Region: PBP1_ycjW_transcription_regulator_like; cd06294 158879004367 putative ligand binding site [chemical binding]; other site 158879004368 putative dimerization interface [polypeptide binding]; other site 158879004369 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 158879004370 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 158879004371 H+ Antiporter protein; Region: 2A0121; TIGR00900 158879004372 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 158879004373 putative substrate translocation pore; other site 158879004374 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879004375 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 158879004376 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 158879004377 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 158879004378 peptidase T-like protein; Region: PepT-like; TIGR01883 158879004379 metal binding site [ion binding]; metal-binding site 158879004380 putative dimer interface [polypeptide binding]; other site 158879004381 Predicted membrane protein [Function unknown]; Region: COG4129 158879004382 Bacterial protein of unknown function (DUF939); Region: DUF939; cl12136 158879004383 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 158879004384 Protein of unknown function (DUF1094); Region: DUF1094; pfam06491 158879004385 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 158879004386 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 158879004387 E3 interaction surface; other site 158879004388 lipoyl attachment site [posttranslational modification]; other site 158879004389 e3 binding domain; Region: E3_binding; pfam02817 158879004390 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 158879004391 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 158879004392 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 158879004393 alpha subunit interface [polypeptide binding]; other site 158879004394 TPP binding site [chemical binding]; other site 158879004395 heterodimer interface [polypeptide binding]; other site 158879004396 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 158879004397 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 158879004398 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 158879004399 tetramer interface [polypeptide binding]; other site 158879004400 TPP-binding site [chemical binding]; other site 158879004401 heterodimer interface [polypeptide binding]; other site 158879004402 phosphorylation loop region [posttranslational modification] 158879004403 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 158879004404 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879004405 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879004406 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 158879004407 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 158879004408 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 158879004409 Walker A/P-loop; other site 158879004410 ATP binding site [chemical binding]; other site 158879004411 Q-loop/lid; other site 158879004412 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 158879004413 Q-loop/lid; other site 158879004414 ABC transporter signature motif; other site 158879004415 Walker B; other site 158879004416 D-loop; other site 158879004417 H-loop/switch region; other site 158879004418 arginine repressor; Provisional; Region: PRK04280 158879004419 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 158879004420 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 158879004421 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 158879004422 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 158879004423 substrate binding pocket [chemical binding]; other site 158879004424 chain length determination region; other site 158879004425 substrate-Mg2+ binding site; other site 158879004426 catalytic residues [active] 158879004427 aspartate-rich region 1; other site 158879004428 active site lid residues [active] 158879004429 aspartate-rich region 2; other site 158879004430 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 158879004431 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 158879004432 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 158879004433 generic binding surface II; other site 158879004434 generic binding surface I; other site 158879004435 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 158879004436 putative RNA binding site [nucleotide binding]; other site 158879004437 Protein of unknown function (DUF322); Region: DUF322; cl00574 158879004438 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 158879004439 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 158879004440 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 158879004441 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 158879004442 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 158879004443 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 158879004444 carboxyltransferase (CT) interaction site; other site 158879004445 biotinylation site [posttranslational modification]; other site 158879004446 elongation factor P; Validated; Region: PRK00529 158879004447 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 158879004448 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 158879004449 RNA binding site [nucleotide binding]; other site 158879004450 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 158879004451 RNA binding site [nucleotide binding]; other site 158879004452 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 158879004453 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 158879004454 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 158879004455 active site 158879004456 Axonemal dynein light chain; Region: Ax_dynein_light; pfam10211 158879004457 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 158879004458 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 158879004459 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 158879004460 active site residue [active] 158879004461 Glycine cleavage system protein P (pyridoxal-binding), C-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG1003 158879004462 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 158879004463 tetramer interface [polypeptide binding]; other site 158879004464 pyridoxal 5'-phosphate binding site [chemical binding]; other site 158879004465 catalytic residue [active] 158879004466 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 158879004467 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 158879004468 tetramer interface [polypeptide binding]; other site 158879004469 pyridoxal 5'-phosphate binding site [chemical binding]; other site 158879004470 catalytic residue [active] 158879004471 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 158879004472 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 158879004473 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 158879004474 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 158879004475 ADP binding site [chemical binding]; other site 158879004476 magnesium binding site [ion binding]; other site 158879004477 putative shikimate binding site; other site 158879004478 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 158879004479 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 158879004480 Prokaryotic N-terminal methylation motif; Region: N_methyl; cl06830 158879004481 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 158879004482 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 158879004483 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 158879004484 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 158879004485 Type II/IV secretion system protein; Region: T2SE; pfam00437 158879004486 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158879004487 Walker A motif; other site 158879004488 ATP binding site [chemical binding]; other site 158879004489 Walker B motif; other site 158879004490 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 158879004491 Domain of unknown function DUF77; Region: DUF77; cl00307 158879004492 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 158879004493 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 158879004494 Bacterial protein of unknown function (DUF910); Region: DUF910; cl11543 158879004495 Rhomboid family; Region: Rhomboid; cl11446 158879004496 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 158879004497 binding surface 158879004498 TPR motif; other site 158879004499 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 158879004500 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 158879004501 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 158879004502 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 158879004503 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 158879004504 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 158879004505 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 158879004506 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 158879004507 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 158879004508 metal binding site 2 [ion binding]; metal-binding site 158879004509 putative DNA binding helix; other site 158879004510 metal binding site 1 [ion binding]; metal-binding site 158879004511 dimer interface [polypeptide binding]; other site 158879004512 structural Zn2+ binding site [ion binding]; other site 158879004513 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 158879004514 ABC-ATPase subunit interface; other site 158879004515 dimer interface [polypeptide binding]; other site 158879004516 putative PBP binding regions; other site 158879004517 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 158879004518 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 158879004519 endonuclease IV; Provisional; Region: PRK01060 158879004520 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 158879004521 AP (apurinic/apyrimidinic) site pocket; other site 158879004522 DNA interaction; other site 158879004523 Metal-binding active site; metal-binding site 158879004524 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 158879004525 DEAD-like helicases superfamily; Region: DEXDc; smart00487 158879004526 ATP binding site [chemical binding]; other site 158879004527 Mg++ binding site [ion binding]; other site 158879004528 motif III; other site 158879004529 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 158879004530 nucleotide binding region [chemical binding]; other site 158879004531 ATP-binding site [chemical binding]; other site 158879004532 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 158879004533 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 158879004534 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 158879004535 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 158879004536 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 158879004537 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 158879004538 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 158879004539 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 158879004540 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 158879004541 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 158879004542 DNA binding residues [nucleotide binding] 158879004543 DNA primase, catalytic core; Region: dnaG; TIGR01391 158879004544 CHC2 zinc finger; Region: zf-CHC2; cl15369 158879004545 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 158879004546 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 158879004547 active site 158879004548 metal binding site [ion binding]; metal-binding site 158879004549 interdomain interaction site; other site 158879004550 Domain of unknown function (DUF299); Region: DUF299; cl00780 158879004551 Helix-turn-helix domains; Region: HTH; cl00088 158879004552 FOG: CBS domain [General function prediction only]; Region: COG0517 158879004553 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_4; cd04617 158879004554 glycyl-tRNA synthetase; Provisional; Region: PRK04173 158879004555 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 158879004556 motif 1; other site 158879004557 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3'...; Region: GlyRS-like_core; cd00774 158879004558 active site 158879004559 motif 2; other site 158879004560 motif 3; other site 158879004561 GlyRS Glycyl-anticodon binding domain. GlyRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: GlyRS_anticodon; cd00858 158879004562 anticodon binding site; other site 158879004563 DNA repair protein RecO; Region: reco; TIGR00613 158879004564 Recombination protein O N terminal; Region: RecO_N; pfam11967 158879004565 Recombination protein O C terminal; Region: RecO_C; pfam02565 158879004566 GTPase Era; Reviewed; Region: era; PRK00089 158879004567 Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly...; Region: Era; cd04163 158879004568 G1 box; other site 158879004569 GTP/Mg2+ binding site [chemical binding]; other site 158879004570 Switch I region; other site 158879004571 G2 box; other site 158879004572 Switch II region; other site 158879004573 G3 box; other site 158879004574 G4 box; other site 158879004575 G5 box; other site 158879004576 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 158879004577 active site 158879004578 catalytic motif [active] 158879004579 Zn binding site [ion binding]; other site 158879004580 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 158879004581 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 158879004582 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 158879004583 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158879004584 SigmaW regulon antibacterial; Region: YdfA_immunity; cl12057 158879004585 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 158879004586 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 158879004587 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 158879004588 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 158879004589 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 158879004590 FeS/SAM binding site; other site 158879004591 TRAM domain; Region: TRAM; cl01282 158879004592 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 158879004593 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 158879004594 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 158879004595 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 158879004596 S-adenosylmethionine binding site [chemical binding]; other site 158879004597 chaperone protein DnaJ; Provisional; Region: PRK14280 158879004598 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 158879004599 HSP70 interaction site [polypeptide binding]; other site 158879004600 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 158879004601 substrate binding site [polypeptide binding]; other site 158879004602 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 158879004603 Zn binding sites [ion binding]; other site 158879004604 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 158879004605 dimer interface [polypeptide binding]; other site 158879004606 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 158879004607 heat shock protein GrpE; Provisional; Region: PRK14140 158879004608 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 158879004609 dimer interface [polypeptide binding]; other site 158879004610 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 158879004611 heat shock gene repressor HrcA; Region: hrcA; TIGR00331 158879004612 Helix-turn-helix domains; Region: HTH; cl00088 158879004613 HrcA protein C terminal domain; Region: HrcA; pfam01628 158879004614 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 158879004615 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 158879004616 FeS/SAM binding site; other site 158879004617 HemN C-terminal domain; Region: HemN_C; pfam06969 158879004618 Protein of unknown function (DUF3125); Region: DUF3125; pfam11323 158879004619 GTP-binding protein LepA; Provisional; Region: PRK05433 158879004620 LepA subfamily. LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and...; Region: LepA; cd01890 158879004621 G1 box; other site 158879004622 putative GEF interaction site [polypeptide binding]; other site 158879004623 GTP/Mg2+ binding site [chemical binding]; other site 158879004624 Switch I region; other site 158879004625 G2 box; other site 158879004626 G3 box; other site 158879004627 Switch II region; other site 158879004628 G4 box; other site 158879004629 G5 box; other site 158879004630 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 158879004631 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 158879004632 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 158879004633 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 158879004634 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 158879004635 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 158879004636 Competence protein; Region: Competence; cl00471 158879004637 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 158879004638 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 158879004639 catalytic motif [active] 158879004640 Zn binding site [ion binding]; other site 158879004641 comEA protein; Region: comE; TIGR01259 158879004642 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 158879004643 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 158879004644 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 158879004645 S-adenosylmethionine binding site [chemical binding]; other site 158879004646 Domain of unknown function DUF143; Region: DUF143; cl00519 158879004647 Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]; Region: COG1713 158879004648 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 158879004649 Zn2+ binding site [ion binding]; other site 158879004650 Mg2+ binding site [ion binding]; other site 158879004651 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 158879004652 nicotinate (nicotinamide) nucleotide adenylyltransferase; Region: TIGR00482 158879004653 active site 158879004654 (T/H)XGH motif; other site 158879004655 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 158879004656 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 158879004657 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 158879004658 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 158879004659 shikimate binding site; other site 158879004660 NAD(P) binding site [chemical binding]; other site 158879004661 GTPase YqeH; Provisional; Region: PRK13796 158879004662 YqeH. YqeH is an essential GTP-binding protein. Depletion of YqeH induces an excess initiation of DNA replication, suggesting that it negatively controls initiation of chromosome replication. The YqeH subfamily is common in eukaryotes and sporadically...; Region: YqeH; cd01855 158879004663 GTP/Mg2+ binding site [chemical binding]; other site 158879004664 G4 box; other site 158879004665 G5 box; other site 158879004666 G1 box; other site 158879004667 Switch I region; other site 158879004668 G2 box; other site 158879004669 G3 box; other site 158879004670 Switch II region; other site 158879004671 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 158879004672 active site 158879004673 motif I; other site 158879004674 motif II; other site 158879004675 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 158879004676 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 158879004677 Staphylococcal/Streptococcal toxin, OB-fold domain; Region: Stap_Strp_toxin; pfam01123 158879004678 Fic family protein [Function unknown]; Region: COG3177 158879004679 Fic/DOC family; Region: Fic; cl00960 158879004680 Natural resistance-associated macrophage protein; Region: Nramp; cl00836 158879004681 LamB/YcsF family; Region: LamB_YcsF; cl00664 158879004682 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 158879004683 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 158879004684 ATP-grasp domain; Region: ATP-grasp_4; cl03087 158879004685 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 158879004686 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 158879004687 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 158879004688 carboxyltransferase (CT) interaction site; other site 158879004689 biotinylation site [posttranslational modification]; other site 158879004690 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 158879004691 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 158879004692 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 158879004693 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 158879004694 domain; Region: GreA_GreB_N; pfam03449 158879004695 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 158879004696 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 158879004697 Sugar specificity; other site 158879004698 Pyrimidine base specificity; other site 158879004699 ATP-binding site [chemical binding]; other site 158879004700 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 158879004701 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 158879004702 Peptidase family U32; Region: Peptidase_U32; cl03113 158879004703 Peptidase family U32; Region: Peptidase_U32; cl03113 158879004704 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 158879004705 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 158879004706 S-adenosylmethionine binding site [chemical binding]; other site 158879004707 Protein of unknown function (DUF1292); Region: DUF1292; cl01608 158879004708 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 158879004709 Bacterial protein of unknown function (DUF965); Region: DUF965; cl01857 158879004710 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 158879004711 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 158879004712 motif 1; other site 158879004713 active site 158879004714 motif 2; other site 158879004715 motif 3; other site 158879004716 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 158879004717 DHHA1 domain; Region: DHHA1; pfam02272 158879004718 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 158879004719 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 158879004720 binding surface 158879004721 TPR motif; other site 158879004722 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 158879004723 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 158879004724 binding surface 158879004725 TPR motif; other site 158879004726 TPR repeat; Region: TPR_11; pfam13414 158879004727 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 158879004728 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 158879004729 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 158879004730 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 158879004731 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 158879004732 catalytic residue [active] 158879004733 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 158879004734 CsbD-like; Region: CsbD; cl01888 158879004735 Predicted transcriptional regulator [Transcription]; Region: COG1959 158879004736 Helix-turn-helix domains; Region: HTH; cl00088 158879004737 recombination factor protein RarA; Reviewed; Region: PRK13342 158879004738 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 158879004739 Walker A motif; other site 158879004740 ATP binding site [chemical binding]; other site 158879004741 Walker B motif; other site 158879004742 arginine finger; other site 158879004743 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 158879004744 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 158879004745 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 158879004746 putative ATP binding site [chemical binding]; other site 158879004747 putative substrate interface [chemical binding]; other site 158879004748 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 158879004749 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 158879004750 dimer interface [polypeptide binding]; other site 158879004751 anticodon binding site; other site 158879004752 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 158879004753 homodimer interface [polypeptide binding]; other site 158879004754 motif 1; other site 158879004755 active site 158879004756 motif 2; other site 158879004757 GAD domain; Region: GAD; pfam02938 158879004758 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 158879004759 motif 3; other site 158879004760 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 158879004761 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 158879004762 dimer interface [polypeptide binding]; other site 158879004763 motif 1; other site 158879004764 active site 158879004765 motif 2; other site 158879004766 motif 3; other site 158879004767 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 158879004768 anticodon binding site; other site 158879004769 Bacterial SH3 domain; Region: SH3_3; cl02551 158879004770 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 158879004771 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 158879004772 active site 158879004773 metal binding site [ion binding]; metal-binding site 158879004774 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 158879004775 putative active site [active] 158879004776 dimerization interface [polypeptide binding]; other site 158879004777 putative tRNAtyr binding site [nucleotide binding]; other site 158879004778 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 158879004779 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 158879004780 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 158879004781 synthetase active site [active] 158879004782 NTP binding site [chemical binding]; other site 158879004783 metal binding site [ion binding]; metal-binding site 158879004784 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 158879004785 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 158879004786 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 158879004787 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 158879004788 DHH family; Region: DHH; pfam01368 158879004789 DHHA1 domain; Region: DHHA1; pfam02272 158879004790 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; cl11538 158879004791 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 158879004792 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 158879004793 Protein export membrane protein; Region: SecD_SecF; cl14618 158879004794 Protein export membrane protein; Region: SecD_SecF; cl14618 158879004795 Preprotein translocase subunit; Region: YajC; cl00806 158879004796 Queuine tRNA-ribosyltransferase; Region: TGT; cl00409 158879004797 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 158879004798 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 158879004799 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 158879004800 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 158879004801 Walker A motif; other site 158879004802 ATP binding site [chemical binding]; other site 158879004803 Walker B motif; other site 158879004804 arginine finger; other site 158879004805 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 158879004806 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 158879004807 RuvA N terminal domain; Region: RuvA_N; pfam01330 158879004808 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 158879004809 hypothetical protein; Provisional; Region: PRK04435 158879004810 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 158879004811 GTPase CgtA; Reviewed; Region: obgE; PRK12297 158879004812 GTP1/OBG; Region: GTP1_OBG; pfam01018 158879004813 Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins...; Region: Obg; cd01898 158879004814 G1 box; other site 158879004815 GTP/Mg2+ binding site [chemical binding]; other site 158879004816 Switch I region; other site 158879004817 G2 box; other site 158879004818 G3 box; other site 158879004819 Switch II region; other site 158879004820 G4 box; other site 158879004821 G5 box; other site 158879004822 Domain of unknown function (DUF1967); Region: DUF1967; cl07779 158879004823 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 158879004824 Protein of unknown function (DUF464); Region: DUF464; cl01080 158879004825 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 158879004826 rod shape-determining protein MreD; Region: MreD; cl01087 158879004827 rod shape-determining protein MreC; Provisional; Region: PRK13922 158879004828 rod shape-determining protein MreC; Region: MreC; pfam04085 158879004829 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 158879004830 S-adenosylmethionine binding site [chemical binding]; other site 158879004831 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 158879004832 S-adenosylmethionine binding site [chemical binding]; other site 158879004833 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 158879004834 active site 158879004835 NTP binding site [chemical binding]; other site 158879004836 metal binding triad [ion binding]; metal-binding site 158879004837 antibiotic binding site [chemical binding]; other site 158879004838 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 158879004839 Tn544B and related transposases, DNA breaking-rejoining enzymes, integrase/recombinases, catalytic domain. This CD includes various bacterial transposases similar to TnpB from transposon Tn554; Region: INT_Tn544B_C; cd01195 158879004840 Phage integrase family; Region: Phage_integrase; pfam00589 158879004841 Int/Topo IB signature motif; other site 158879004842 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 158879004843 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 158879004844 Tn544A and related transposases, DNA breaking-rejoining enzymes, integrase/recombinases, C-terminal catalytic domain. This CD includes various bacterial transposases similar to TnpA from transposon Tn554; Region: INT_Tn554A_C; cd01194 158879004845 Int/Topo IB signature motif; other site 158879004846 hypothetical protein; Reviewed; Region: PRK00024 158879004847 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 158879004848 MPN+ (JAMM) motif; other site 158879004849 Zinc-binding site [ion binding]; other site 158879004850 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 158879004851 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 158879004852 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 158879004853 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 158879004854 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 158879004855 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 158879004856 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 158879004857 active site 158879004858 HIGH motif; other site 158879004859 nucleotide binding site [chemical binding]; other site 158879004860 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 158879004861 active site 158879004862 KMSKS motif; other site 158879004863 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 158879004864 tRNA binding surface [nucleotide binding]; other site 158879004865 anticodon binding site; other site 158879004866 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 158879004867 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 158879004868 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 158879004869 Putative ammonia monooxygenase; Region: AmoA; pfam05145 158879004870 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 158879004871 similar to hypothetical protein 158879004872 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 158879004873 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 158879004874 inhibitor-cofactor binding pocket; inhibition site 158879004875 pyridoxal 5'-phosphate binding site [chemical binding]; other site 158879004876 catalytic residue [active] 158879004877 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 158879004878 dimer interface [polypeptide binding]; other site 158879004879 active site 158879004880 Schiff base residues; other site 158879004881 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 158879004882 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 158879004883 active site 158879004884 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 158879004885 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cd00494 158879004886 domain interfaces; other site 158879004887 active site 158879004888 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 158879004889 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 158879004890 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 158879004891 tRNA; other site 158879004892 putative tRNA binding site [nucleotide binding]; other site 158879004893 putative NADP binding site [chemical binding]; other site 158879004894 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 158879004895 Predicted GTPase [General function prediction only]; Region: COG0218 158879004896 The YihA (EngB) subfamily. This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and...; Region: YihA_EngB; cd01876 158879004897 G1 box; other site 158879004898 GTP/Mg2+ binding site [chemical binding]; other site 158879004899 Switch I region; other site 158879004900 G2 box; other site 158879004901 G3 box; other site 158879004902 Switch II region; other site 158879004903 G4 box; other site 158879004904 G5 box; other site 158879004905 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 158879004906 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 158879004907 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158879004908 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 158879004909 trigger factor; Provisional; Region: tig; PRK01490 158879004910 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 158879004911 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 158879004912 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 158879004913 nudix motif; other site 158879004914 ribosomal protein L20; Region: rpl20; CHL00068 158879004915 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 158879004916 23S rRNA binding site [nucleotide binding]; other site 158879004917 L21 binding site [polypeptide binding]; other site 158879004918 L13 binding site [polypeptide binding]; other site 158879004919 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 158879004920 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 158879004921 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 158879004922 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 158879004923 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 158879004924 Amino acid permease; Region: AA_permease; cl00524 158879004925 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 158879004926 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 158879004927 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 158879004928 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 158879004929 active site 158879004930 dimer interface [polypeptide binding]; other site 158879004931 motif 1; other site 158879004932 motif 2; other site 158879004933 motif 3; other site 158879004934 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 158879004935 anticodon binding site; other site 158879004936 primosomal protein DnaI; Reviewed; Region: PRK08939 158879004937 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 158879004938 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 158879004939 Walker A motif; other site 158879004940 ATP binding site [chemical binding]; other site 158879004941 Walker B motif; other site 158879004942 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 158879004943 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 158879004944 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 158879004945 ATP cone domain; Region: ATP-cone; pfam03477 158879004946 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 158879004947 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 158879004948 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 158879004949 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 158879004950 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 158879004951 CoA-binding site [chemical binding]; other site 158879004952 ATP-binding [chemical binding]; other site 158879004953 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 158879004954 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 158879004955 DNA binding site [nucleotide binding] 158879004956 catalytic residue [active] 158879004957 H2TH interface [polypeptide binding]; other site 158879004958 putative catalytic residues [active] 158879004959 turnover-facilitating residue; other site 158879004960 intercalation triad [nucleotide binding]; other site 158879004961 8OG recognition residue [nucleotide binding]; other site 158879004962 putative reading head residues; other site 158879004963 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 158879004964 DNA polymerase I; Provisional; Region: PRK05755 158879004965 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 158879004966 active site 158879004967 metal binding site 1 [ion binding]; metal-binding site 158879004968 putative 5' ssDNA interaction site; other site 158879004969 metal binding site 3; metal-binding site 158879004970 metal binding site 2 [ion binding]; metal-binding site 158879004971 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 158879004972 putative DNA binding site [nucleotide binding]; other site 158879004973 putative metal binding site [ion binding]; other site 158879004974 inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases; Region: DNA_polA_I_Bacillus_like_exo; cd06140 158879004975 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 158879004976 active site 158879004977 DNA binding site [nucleotide binding] 158879004978 catalytic site [active] 158879004979 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 158879004980 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in 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 158879004981 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 158879004982 dimer interface [polypeptide binding]; other site 158879004983 phosphorylation site [posttranslational modification] 158879004984 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 158879004985 ATP binding site [chemical binding]; other site 158879004986 Mg2+ binding site [ion binding]; other site 158879004987 G-X-G motif; other site 158879004988 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 158879004989 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 158879004990 active site 158879004991 phosphorylation site [posttranslational modification] 158879004992 intermolecular recognition site; other site 158879004993 dimerization interface [polypeptide binding]; other site 158879004994 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 158879004995 DNA binding site [nucleotide binding] 158879004996 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 158879004997 isocitrate dehydrogenase; Validated; Region: PRK07362 158879004998 Bacillus subtilis (Bs) citrate synthase (CS)-II_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). 2MCS catalyzes the...; Region: BSuCS-II_like; cd06110 158879004999 dimer interface [polypeptide binding]; other site 158879005000 Citrate synthase; Region: Citrate_synt; pfam00285 158879005001 active site 158879005002 citrylCoA binding site [chemical binding]; other site 158879005003 oxalacetate/citrate binding site [chemical binding]; other site 158879005004 coenzyme A binding site [chemical binding]; other site 158879005005 catalytic triad [active] 158879005006 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 158879005007 Amino acid permease; Region: AA_permease; cl00524 158879005008 pyruvate kinase; Provisional; Region: PRK06354 158879005009 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; cd00288 158879005010 domain interfaces; other site 158879005011 active site 158879005012 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 158879005013 6-phosphofructokinase; Provisional; Region: PRK03202 158879005014 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 158879005015 dimerization interface [polypeptide binding]; other site 158879005016 allosteric effector site; other site 158879005017 active site 158879005018 ADP/pyrophosphate binding site [chemical binding]; other site 158879005019 fructose-1,6-bisphosphate binding site; other site 158879005020 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 158879005021 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl14780 158879005022 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 158879005023 Crotonase/Enoyl-Coenzyme A (CoA) hydratase superfamily. This superfamily contains a diverse set of enzymes including enoyl-CoA hydratase, napthoate synthase, methylmalonyl-CoA decarboxylase, 3-hydoxybutyryl-CoA dehydratase, and dienoyl-CoA isomerase; Region: crotonase-like; cl14780 158879005024 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 158879005025 Malic enzyme, N-terminal domain; Region: malic; pfam00390 158879005026 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 158879005027 putative NAD(P) binding site [chemical binding]; other site 158879005028 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 158879005029 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 158879005030 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 158879005031 generic binding surface I; other site 158879005032 generic binding surface II; other site 158879005033 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 158879005034 DHH family; Region: DHH; pfam01368 158879005035 DHHA1 domain; Region: DHHA1; pfam02272 158879005036 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 158879005037 Helix-turn-helix domains; Region: HTH; cl00088 158879005038 DNA-binding site [nucleotide binding]; DNA binding site 158879005039 DRTGG domain; Region: DRTGG; cl12147 158879005040 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with a DRTGG domain upstream. The function of the DRTGG domain, named after its conserved residues, is unknown. CBS is a small domain originally...; Region: CBS_pair_DRTGG_assoc; cd04596 158879005041 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 158879005042 Ligand Binding Site [chemical binding]; other site 158879005043 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 158879005044 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 158879005045 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 158879005046 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 158879005047 active site 158879005048 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 158879005049 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 158879005050 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879005051 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 158879005052 Ligand Binding Site [chemical binding]; other site 158879005053 Acetokinase family; Region: Acetate_kinase; cl01029 158879005054 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 158879005055 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879005056 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 158879005057 dimer interface [polypeptide binding]; other site 158879005058 catalytic triad [active] 158879005059 peroxidatic and resolving cysteines [active] 158879005060 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 158879005061 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 158879005062 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 158879005063 THUMP domain; Region: THUMP; cl12076 158879005064 ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide; Region: ThiI; cd01712 158879005065 Ligand Binding Site [chemical binding]; other site 158879005066 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 158879005067 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 158879005068 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 158879005069 catalytic residue [active] 158879005070 septation ring formation regulator EzrA; Provisional; Region: PRK04778 158879005071 GAF domain; Region: GAF; cl00853 158879005072 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 158879005073 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 158879005074 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 158879005075 RNA binding surface [nucleotide binding]; other site 158879005076 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 158879005077 Transposase; Region: DDE_Tnp_ISL3; pfam01610 158879005078 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 158879005079 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 158879005080 active site 158879005081 catalytic site [active] 158879005082 OsmC-like protein; Region: OsmC; cl00767 158879005083 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 158879005084 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 158879005085 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 158879005086 catalytic residue [active] 158879005087 D-3-phosphoglycerate dehydrogenase; Region: PGDH; TIGR01327 158879005088 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879005089 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 158879005090 putative L-serine binding site [chemical binding]; other site 158879005091 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 158879005092 motif II; other site 158879005093 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 158879005094 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 158879005095 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 158879005096 active site turn [active] 158879005097 phosphorylation site [posttranslational modification] 158879005098 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 158879005099 putative acyl-acceptor binding pocket; other site 158879005100 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 158879005101 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 158879005102 protein binding site [polypeptide binding]; other site 158879005103 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 158879005104 catalytic core domain of tyrosinyl-tRNA and tryptophanyl-tRNA synthetase; Region: Tyr_Trp_RS_core; cd00395 158879005105 active site 158879005106 HIGH motif; other site 158879005107 dimer interface [polypeptide binding]; other site 158879005108 KMSKS motif; other site 158879005109 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 158879005110 RNA binding surface [nucleotide binding]; other site 158879005111 Transglycosylase; Region: Transgly; cl07896 158879005112 haptoglobin-binding heme uptake protein HarA; Region: IsdH_HarA; TIGR03658 158879005113 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 158879005114 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cl02760 158879005115 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cl02760 158879005116 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 158879005117 heme-binding site [chemical binding]; other site 158879005118 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 158879005119 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 158879005120 Potassium binding sites [ion binding]; other site 158879005121 Cesium cation binding sites [ion binding]; other site 158879005122 acetyl-CoA synthetase; Provisional; Region: PRK04319 158879005123 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 158879005124 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 158879005125 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 158879005126 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 158879005127 catabolite control protein A; Region: ccpA; TIGR01481 158879005128 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 158879005129 DNA binding site [nucleotide binding] 158879005130 domain linker motif; other site 158879005131 Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation; Region: PBP1_CcpA_like; cd06298 158879005132 dimerization interface [polypeptide binding]; other site 158879005133 effector binding site; other site 158879005134 bifunctional 3-deoxy-7-phosphoheptulonate synthase/chorismate mutase; Reviewed; Region: PRK12595 158879005135 Chorismate mutase type II; Region: CM_2; cl00693 158879005136 NeuB family; Region: NeuB; cl00496 158879005137 Bacterial protein of unknown function (DUF948); Region: DUF948; cl01972 158879005138 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 158879005139 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 158879005140 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 158879005141 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 158879005142 Ring-infected erythrocyte surface antigen; Provisional; Region: PTZ00341 158879005143 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158879005144 HerA helicase [Replication, recombination, and repair]; Region: COG0433 158879005145 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 158879005146 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 158879005147 putative tRNA-binding site [nucleotide binding]; other site 158879005148 Protein of unknown function (DUF1444); Region: DUF1444; cl02011 158879005149 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 158879005150 catalytic residues [active] 158879005151 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 158879005152 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 158879005153 oligomer interface [polypeptide binding]; other site 158879005154 active site 158879005155 metal binding site [ion binding]; metal-binding site 158879005156 Predicted small secreted protein [Function unknown]; Region: COG5584 158879005157 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 158879005158 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 158879005159 Phosphotransferase enzyme family; Region: APH; pfam01636 158879005160 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cd05120 158879005161 substrate binding site [chemical binding]; other site 158879005162 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 158879005163 homodimer interface [polypeptide binding]; other site 158879005164 substrate-cofactor binding pocket; other site 158879005165 pyridoxal 5'-phosphate binding site [chemical binding]; other site 158879005166 Aminotransferase class IV; Region: Aminotran_4; pfam01063 158879005167 catalytic residue [active] 158879005168 dipeptidase PepV; Reviewed; Region: PRK07318 158879005169 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 158879005170 active site 158879005171 metal binding site [ion binding]; metal-binding site 158879005172 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 158879005173 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 158879005174 RNA binding surface [nucleotide binding]; other site 158879005175 PseudoU_synth_RsuA: Pseudouridine synthase, Escherichia coli RsuA like. This group is comprised of eukaryotic and bacterial proteins similar to Escherichia coli RsuA. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA...; Region: PseudoU_synth_RsuA; cd02553 158879005176 active site 158879005177 uracil binding [chemical binding]; other site 158879005178 MatE; Region: MatE; cl10513 158879005179 stage V sporulation protein B; Region: spore_V_B; TIGR02900 158879005180 MatE; Region: MatE; cl10513 158879005181 Predicted flavoproteins [General function prediction only]; Region: COG2081 158879005182 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879005183 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 158879005184 cytoskeletal protein RodZ; Provisional; Region: PRK10856 158879005185 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 158879005186 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 158879005187 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 158879005188 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 158879005189 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 158879005190 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 158879005191 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 158879005192 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 158879005193 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 158879005194 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 158879005195 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 158879005196 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 158879005197 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 158879005198 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 158879005199 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 158879005200 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 158879005201 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 158879005202 active site residue [active] 158879005203 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 158879005204 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 158879005205 HIGH motif; other site 158879005206 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 158879005207 active site 158879005208 KMSKS motif; other site 158879005209 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 158879005210 tRNA binding surface [nucleotide binding]; other site 158879005211 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 158879005212 Major Facilitator Superfamily; Region: MFS_1; pfam07690 158879005213 putative substrate translocation pore; other site 158879005214 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 158879005215 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 158879005216 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 158879005217 Helix-turn-helix domains; Region: HTH; cl00088 158879005218 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 158879005219 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 158879005220 Proline dehydrogenase; Region: Pro_dh; cl03282 158879005221 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 158879005222 homopentamer interface [polypeptide binding]; other site 158879005223 active site 158879005224 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 158879005225 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 158879005226 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 158879005227 dimerization interface [polypeptide binding]; other site 158879005228 active site 158879005229 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 158879005230 Lumazine binding domain; Region: Lum_binding; pfam00677 158879005231 Lumazine binding domain; Region: Lum_binding; pfam00677 158879005232 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 158879005233 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 158879005234 catalytic motif [active] 158879005235 Zn binding site [ion binding]; other site 158879005236 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 158879005237 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 158879005238 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879005239 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 158879005240 dimerization interface [polypeptide binding]; other site 158879005241 putative DNA binding site [nucleotide binding]; other site 158879005242 putative Zn2+ binding site [ion binding]; other site 158879005243 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 158879005244 arsenical pump membrane protein; Provisional; Region: PRK15445 158879005245 transmembrane helices; other site 158879005246 Beta- N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: LytD; COG4193 158879005247 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 158879005248 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 158879005249 Helix-turn-helix domains; Region: HTH; cl00088 158879005250 DNA binding residues [nucleotide binding] 158879005251 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 158879005252 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 158879005253 active site 158879005254 intersubunit interactions; other site 158879005255 catalytic residue [active] 158879005256 CrcB-like protein; Region: CRCB; cl09114 158879005257 CrcB-like protein; Region: CRCB; cl09114 158879005258 framshifted transposase 158879005259 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 158879005260 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 158879005261 active site 158879005262 catalytic tetrad [active] 158879005263 S-adenosylmethionine synthetase; Validated; Region: PRK05250 158879005264 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 158879005265 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 158879005266 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 158879005267 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 158879005268 active site 158879005269 substrate-binding site [chemical binding]; other site 158879005270 metal-binding site [ion binding] 158879005271 ATP binding site [chemical binding]; other site 158879005272 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 158879005273 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 158879005274 nucleoside triphosphatase YtkD; Region: nudix_YtkD; TIGR02705 158879005275 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_8; cd04665 158879005276 nudix motif; other site 158879005277 Domain of unknown function DUF37; Region: DUF37; cl00506 158879005278 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 158879005279 o-succinylbenzoate synthase; Region: menC_lowGC/arch; TIGR01928 158879005280 metal binding site [ion binding]; metal-binding site 158879005281 substrate binding pocket [chemical binding]; other site 158879005282 O-succinylbenzoate-CoA ligase; Region: menE; TIGR01923 158879005283 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 158879005284 Excalibur calcium-binding domain; Region: Excalibur; cl05460 158879005285 Telomeric repeat-binding factor 2; Region: TRF2; pfam11611 158879005286 Protein of unknown function (DUF3969); Region: DUF3969; pfam13108 158879005287 Pathogenicity island SaPIn3 158879005288 frameshifted transposase 158879005289 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 158879005290 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 158879005291 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 158879005292 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 158879005293 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 158879005294 HsdM N-terminal domain; Region: HsdM_N; pfam12161 158879005295 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 158879005296 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 158879005297 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 158879005298 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 158879005299 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 158879005300 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 158879005301 Domain of unknown function DUF1828; Region: DUF1828; pfam08861 158879005302 Domain of unknown function DUF1829; Region: DUF1829; pfam08862 158879005303 Leukocidin/Hemolysin toxin family; Region: Leukocidin; cl08468 158879005304 Leukocidin/Hemolysin toxin family; Region: Leukocidin; cl08468 158879005305 Domain of unknown function DUF1828; Region: DUF1828; pfam08861 158879005306 Domain of unknown function DUF1829; Region: DUF1829; pfam08862 158879005307 Domain of unknown function DUF1828; Region: DUF1828; pfam08861 158879005308 Domain of unknown function DUF1829; Region: DUF1829; pfam08862 158879005309 Staphylococcal/Streptococcal toxin, OB-fold domain; Region: Stap_Strp_toxin; pfam01123 158879005310 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 158879005311 Staphylococcal/Streptococcal toxin, OB-fold domain; Region: Stap_Strp_toxin; pfam01123 158879005312 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 158879005313 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 158879005314 Staphylococcal/Streptococcal toxin, OB-fold domain; Region: Stap_Strp_toxin; pfam01123 158879005315 Staphylococcal/Streptococcal toxin, OB-fold domain; Region: Stap_Strp_toxin; pfam01123 158879005316 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 158879005317 Staphylococcal/Streptococcal toxin, OB-fold domain; Region: Stap_Strp_toxin; pfam01123 158879005318 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 158879005319 Staphylococcal/Streptococcal toxin, OB-fold domain; Region: Stap_Strp_toxin; pfam01123 158879005320 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 158879005321 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 158879005322 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 158879005323 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879005324 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 158879005325 ferrochelatase; Provisional; Region: PRK12435 158879005326 Ferrochelatase, N-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_N; cd03411 158879005327 C-terminal domain interface [polypeptide binding]; other site 158879005328 active site 158879005329 Ferrochelatase, C-terminal domain: Ferrochelatase (protoheme ferrolyase or HemH) is the terminal enzyme of the heme biosynthetic pathway. It catalyzes the insertion of ferrous iron into the protoporphyrin IX ring yielding protoheme. This enzyme is...; Region: Ferrochelatase_C; cd00419 158879005330 active site 158879005331 N-terminal domain interface [polypeptide binding]; other site 158879005332 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 158879005333 substrate binding site [chemical binding]; other site 158879005334 active site 158879005335 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 158879005336 Bacterial ABC transporter protein EcsB; Region: EcsB; cl11542 158879005337 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 158879005338 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 158879005339 Walker A/P-loop; other site 158879005340 ATP binding site [chemical binding]; other site 158879005341 Q-loop/lid; other site 158879005342 ABC transporter signature motif; other site 158879005343 Walker B; other site 158879005344 D-loop; other site 158879005345 H-loop/switch region; other site 158879005346 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 158879005347 HIT family signature motif; other site 158879005348 catalytic residue [active] 158879005349 YtxH-like protein; Region: YtxH; cl02079 158879005350 Protein of unknown function (DUF3267); Region: DUF3267; pfam11667 158879005351 peptidylprolyl isomerase; Provisional; Region: prsA; PRK04405 158879005352 PPIC-type PPIASE domain; Region: Rotamase; cl08278 158879005353 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 158879005354 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 158879005355 generic binding surface II; other site 158879005356 generic binding surface I; other site 158879005357 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 158879005358 Zn2+ binding site [ion binding]; other site 158879005359 Mg2+ binding site [ion binding]; other site 158879005360 Uncharacterized conserved protein [Function unknown]; Region: COG4717 158879005361 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158879005362 Walker A/P-loop; other site 158879005363 ATP binding site [chemical binding]; other site 158879005364 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 158879005365 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 158879005366 active site 158879005367 metal binding site [ion binding]; metal-binding site 158879005368 DNA binding site [nucleotide binding] 158879005369 Protein of unknown function (DUF964); Region: DUF964; cl01483 158879005370 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 158879005371 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 158879005372 non-specific DNA binding site [nucleotide binding]; other site 158879005373 salt bridge; other site 158879005374 sequence-specific DNA binding site [nucleotide binding]; other site 158879005375 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 158879005376 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 158879005377 active site 158879005378 phosphorylation site [posttranslational modification] 158879005379 intermolecular recognition site; other site 158879005380 dimerization interface [polypeptide binding]; other site 158879005381 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 158879005382 DNA binding residues [nucleotide binding] 158879005383 dimerization interface [polypeptide binding]; other site 158879005384 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 158879005385 GAF domain; Region: GAF; cl00853 158879005386 Histidine kinase; Region: HisKA_3; pfam07730 158879005387 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 158879005388 ATP binding site [chemical binding]; other site 158879005389 Mg2+ binding site [ion binding]; other site 158879005390 G-X-G motif; other site 158879005391 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 158879005392 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 158879005393 active site 158879005394 fumarate hydratase; Reviewed; Region: fumC; PRK00485 158879005395 Class II fumarases; Region: Fumarase_classII; cd01362 158879005396 active site 158879005397 tetramer interface [polypeptide binding]; other site 158879005398 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 158879005399 active site 158879005400 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 158879005401 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 158879005402 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 158879005403 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 158879005404 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 158879005405 Walker A/P-loop; other site 158879005406 ATP binding site [chemical binding]; other site 158879005407 Q-loop/lid; other site 158879005408 ABC transporter signature motif; other site 158879005409 Walker B; other site 158879005410 D-loop; other site 158879005411 H-loop/switch region; other site 158879005412 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 158879005413 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 158879005414 substrate binding pocket [chemical binding]; other site 158879005415 membrane-bound complex binding site; other site 158879005416 hinge residues; other site 158879005417 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 158879005418 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 158879005419 dimer interface [polypeptide binding]; other site 158879005420 conserved gate region; other site 158879005421 putative PBP binding loops; other site 158879005422 ABC-ATPase subunit interface; other site 158879005423 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 158879005424 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 158879005425 Transposase; Region: DDE_Tnp_ISL3; pfam01610 158879005426 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 158879005427 metal binding site 2 [ion binding]; metal-binding site 158879005428 putative DNA binding helix; other site 158879005429 metal binding site 1 [ion binding]; metal-binding site 158879005430 dimer interface [polypeptide binding]; other site 158879005431 structural Zn2+ binding site [ion binding]; other site 158879005432 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 158879005433 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879005434 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 158879005435 catalytic triad [active] 158879005436 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK12389 158879005437 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 158879005438 inhibitor-cofactor binding pocket; inhibition site 158879005439 pyridoxal 5'-phosphate binding site [chemical binding]; other site 158879005440 catalytic residue [active] 158879005441 Predicted membrane protein [Function unknown]; Region: COG4129 158879005442 Bacterial protein of unknown function (DUF939); Region: DUF939; cl12136 158879005443 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 158879005444 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 158879005445 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 158879005446 Walker A/P-loop; other site 158879005447 ATP binding site [chemical binding]; other site 158879005448 Q-loop/lid; other site 158879005449 ABC transporter signature motif; other site 158879005450 Walker B; other site 158879005451 D-loop; other site 158879005452 H-loop/switch region; other site 158879005453 Protein of unknown function (DUF402); Region: DUF402; cl00979 158879005454 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 158879005455 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 158879005456 minor groove reading motif; other site 158879005457 helix-hairpin-helix signature motif; other site 158879005458 substrate binding pocket [chemical binding]; other site 158879005459 active site 158879005460 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 158879005461 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 158879005462 DNA binding and oxoG recognition site [nucleotide binding] 158879005463 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 158879005464 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 158879005465 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158879005466 Walker A/P-loop; other site 158879005467 ATP binding site [chemical binding]; other site 158879005468 Q-loop/lid; other site 158879005469 ABC transporter signature motif; other site 158879005470 Walker B; other site 158879005471 D-loop; other site 158879005472 H-loop/switch region; other site 158879005473 Protein of unknown function (DUF1811); Region: DUF1811; pfam08838 158879005474 RecX family; Region: RecX; cl00936 158879005475 Transglycosylase; Region: Transgly; cl07896 158879005476 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 158879005477 proposed catalytic triad [active] 158879005478 conserved cys residue [active] 158879005479 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 158879005480 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 158879005481 FeS/SAM binding site; other site 158879005482 YfkB-like domain; Region: YfkB; pfam08756 158879005483 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 158879005484 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 158879005485 Protein of unknown function (DUF1128); Region: DUF1128; cl11553 158879005486 Low molecular weight phosphatase family; Region: LMWPc; cd00115 158879005487 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 158879005488 active site 158879005489 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 158879005490 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 158879005491 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 158879005492 active site 158879005493 phosphorylation site [posttranslational modification] 158879005494 intermolecular recognition site; other site 158879005495 dimerization interface [polypeptide binding]; other site 158879005496 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 158879005497 DNA binding residues [nucleotide binding] 158879005498 dimerization interface [polypeptide binding]; other site 158879005499 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 158879005500 Histidine kinase; Region: HisKA_3; pfam07730 158879005501 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 158879005502 ATP binding site [chemical binding]; other site 158879005503 Mg2+ binding site [ion binding]; other site 158879005504 G-X-G motif; other site 158879005505 Predicted membrane protein (DUF2154); Region: DUF2154; cl12089 158879005506 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 158879005507 active site 158879005508 Predicted membrane protein [Function unknown]; Region: COG4129 158879005509 Bacterial protein of unknown function (DUF939); Region: DUF939; cl12136 158879005510 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 158879005511 catalytic triad [active] 158879005512 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 158879005513 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 158879005514 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 158879005515 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 158879005516 Ferritin-like domain; Region: Ferritin; pfam00210 158879005517 ferroxidase diiron center [ion binding]; other site 158879005518 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 158879005519 active site 158879005520 substrate binding site [chemical binding]; other site 158879005521 catalytic site [active] 158879005522 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 158879005523 active site 158879005524 DNA polymerase IV; Validated; Region: PRK02406 158879005525 DNA binding site [nucleotide binding] 158879005526 TRAM domain; Region: TRAM; cl01282 158879005527 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 158879005528 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 158879005529 S-adenosylmethionine binding site [chemical binding]; other site 158879005530 putative lipid kinase; Reviewed; Region: PRK13337 158879005531 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 158879005532 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 158879005533 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 158879005534 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 158879005535 GatB domain; Region: GatB_Yqey; cl11497 158879005536 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 158879005537 Amidase; Region: Amidase; cl11426 158879005538 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 158879005539 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 158879005540 Sodium:solute symporter family; Region: SSF; cl00456 158879005541 CamS sex pheromone cAM373 precursor; Region: CamS; cl11554 158879005542 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 158879005543 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 158879005544 nucleotide binding pocket [chemical binding]; other site 158879005545 K-X-D-G motif; other site 158879005546 catalytic site [active] 158879005547 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 158879005548 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 158879005549 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo...; Region: BRCT; cd00027 158879005550 Dimer interface [polypeptide binding]; other site 158879005551 BRCT sequence motif; other site 158879005552 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 158879005553 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158879005554 Family description; Region: UvrD_C_2; cl15862 158879005555 PcrB_like proteins. One member of this family, a protein from Archaeoglobus fulgidus, has been characterized as a (S)-3-O-geranylgeranylglyceryl phosphate synthase (AfGGGPS). AfGGGPS catalyzes the formation of an ether linkage between...; Region: PcrB_like; cd02812 158879005556 substrate binding site [chemical binding]; other site 158879005557 putative active site [active] 158879005558 dimer interface [polypeptide binding]; other site 158879005559 Trp repressor protein; Region: Trp_repressor; cl01121 158879005560 adenylosuccinate lyase; Provisional; Region: PRK07492 158879005561 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 158879005562 tetramer interface [polypeptide binding]; other site 158879005563 active site 158879005564 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 158879005565 Staphopain peptidase C47; Region: Peptidase_C47; pfam05543 158879005566 Staphostatin A; Region: Staphostatin_A; pfam09022 158879005567 hypothetical protein; Provisional; Region: PRK04164 158879005568 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 158879005569 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 158879005570 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 158879005571 homodimer interface [polypeptide binding]; other site 158879005572 NAD binding pocket [chemical binding]; other site 158879005573 ATP binding pocket [chemical binding]; other site 158879005574 Mg binding site [ion binding]; other site 158879005575 active-site loop [active] 158879005576 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 158879005577 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 158879005578 active site 158879005579 Nitric oxide synthase (NOS) prokaryotic oxygenase domain. NOS produces nitric oxide (NO) by catalyzing a five-electron heme-based oxidation of a guanidine nitrogen of L-arginine to L-citrulline via two successive monooxygenation reactions producing N...; Region: NOS_oxygenase_prok; cd00794 158879005580 active site 158879005581 dimer interface [polypeptide binding]; other site 158879005582 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 158879005583 Prephenate dehydratase; Region: PDT; pfam00800 158879005584 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 158879005585 putative L-Phe binding site [chemical binding]; other site 158879005586 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 158879005587 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 158879005588 transmembrane helices; other site 158879005589 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 158879005590 Isochorismatase family; Region: Isochorismatase; pfam00857 158879005591 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 158879005592 catalytic triad [active] 158879005593 conserved cis-peptide bond; other site 158879005594 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 158879005595 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 158879005596 DHHA2 domain; Region: DHHA2; pfam02833 158879005597 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 158879005598 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 158879005599 NAD(P) binding site [chemical binding]; other site 158879005600 catalytic residues [active] 158879005601 3-carboxymuconate cyclase [Carbohydrate transport and metabolism]; Region: COG2706 158879005602 YolD-like protein; Region: YolD; pfam08863 158879005603 Transposase domain (DUF772); Region: DUF772; cl12084 158879005604 Choloylglycine hydrolase (CGH)_like. This family of choloylglycine hydrolase-like proteins includes conjugated bile acid hydrolase (CBAH), penicillin V acylase (PVA), acid ceramidase (AC), and N-acylethanolamine-hydrolyzing acid amidase (NAAA) which...; Region: Ntn_CGH_like; cd01935 158879005605 active site 158879005606 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 158879005607 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 158879005608 Protein of unknown function (DUF1700); Region: DUF1700; cl01933 158879005609 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 158879005610 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 158879005611 Walker A/P-loop; other site 158879005612 ATP binding site [chemical binding]; other site 158879005613 Q-loop/lid; other site 158879005614 ABC transporter signature motif; other site 158879005615 Walker B; other site 158879005616 D-loop; other site 158879005617 H-loop/switch region; other site 158879005618 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 158879005619 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 158879005620 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 158879005621 Walker A/P-loop; other site 158879005622 ATP binding site [chemical binding]; other site 158879005623 Q-loop/lid; other site 158879005624 ABC transporter signature motif; other site 158879005625 Walker B; other site 158879005626 D-loop; other site 158879005627 H-loop/switch region; other site 158879005628 Predicted transcriptional regulators [Transcription]; Region: COG1725 158879005629 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 158879005630 DNA-binding site [nucleotide binding]; DNA binding site 158879005631 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 158879005632 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 158879005633 pyridoxal 5'-phosphate binding site [chemical binding]; other site 158879005634 homodimer interface [polypeptide binding]; other site 158879005635 catalytic residue [active] 158879005636 MAP domain; Region: MAP; pfam03642 158879005637 MAP domain; Region: MAP; pfam03642 158879005638 MAP domain; Region: MAP; pfam03642 158879005639 MAP domain; Region: MAP; pfam03642 158879005640 MAP domain; Region: MAP; pfam03642 158879005641 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 158879005642 prophage phiN315 158879005643 Staphylococcal complement inhibitor SCIN; Region: CompInhib_SCIN; pfam11546 158879005644 Chemotaxis-inhibiting protein CHIPS; Region: CHIPS; cl10100 158879005645 Bacterial SH3 domain; Region: SH3_3; cl02551 158879005646 Staphylokinase/Streptokinase family; Region: Staphylokinase; pfam02821 158879005647 NlpC/P60 family; Region: NLPC_P60; cl11438 158879005648 Bacteriophage holin; Region: Phage_holin_1; cl02344 158879005649 Staphylococcal/Streptococcal toxin, OB-fold domain; Region: Stap_Strp_toxin; pfam01123 158879005650 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 158879005651 Zinc finger-containing protein; Region: zf-C4H2; pfam10146 158879005652 Ligand-gated ion channel; Region: Lig_chan; pfam00060 158879005653 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 158879005654 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 158879005655 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 158879005656 Phage tail protein; Region: Sipho_tail; cl11462 158879005657 Phage tail protein; Region: Sipho_tail; cl11462 158879005658 Phage-related minor tail protein [Function unknown]; Region: COG5280 158879005659 Phage-related protein [Function unknown]; Region: COG5412 158879005660 Herpesvirus Glycoprotein B; Region: Glycoprotein_B; pfam00606 158879005661 Peptidase family M23; Region: Peptidase_M23; pfam01551 158879005662 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 158879005663 N-acetyl-D-glucosamine binding site [chemical binding]; other site 158879005664 catalytic residue [active] 158879005665 phage major tail protein, phi13 family; Region: maj_tail_phi13; TIGR01603 158879005666 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 158879005667 Translocation protein Sec62; Region: Sec62; cl02170 158879005668 Phage capsid family; Region: Phage_capsid; pfam05065 158879005669 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 158879005670 oligomer interface [polypeptide binding]; other site 158879005671 active site residues [active] 158879005672 phage portal protein, HK97 family; Region: portal_HK97; TIGR01537 158879005673 Phage-related protein [Function unknown]; Region: COG4695; cl01923 158879005674 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 158879005675 Phage Terminase; Region: Terminase_1; pfam03354 158879005676 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 158879005677 phage transcriptional activator, RinA family; Region: phage_rinA; TIGR01636 158879005678 Protein of unknown function (DUF1514); Region: DUF1514; pfam07438 158879005679 Transcriptional activator RinB; Region: RinB; pfam06116 158879005680 Protein of unknown function (DUF1381); Region: DUF1381; pfam07129 158879005681 dUTPase; Region: dUTPase_2; pfam08761 158879005682 Protein of unknown function (DUF1024); Region: DUF1024; pfam06260 158879005683 Phage Conserved Open Reading Frame 51; Region: Phage_Orf51; pfam06194 158879005684 Protein of unknwon function (DUF3310); Region: DUF3310; pfam11753 158879005685 PVL ORF-50-like family; Region: PVL_ORF50; pfam07768 158879005686 Endodeoxyribonuclease RusA; Region: RusA; cl01885 158879005687 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 158879005688 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 158879005689 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 158879005690 dimer interface [polypeptide binding]; other site 158879005691 ssDNA binding site [nucleotide binding]; other site 158879005692 tetramer (dimer of dimers) interface [polypeptide binding]; other site 158879005693 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 158879005694 RecT family; Region: RecT; cl04285 158879005695 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 158879005696 Protein of unknown function (DUF1108); Region: DUF1108; pfam06531 158879005697 Hypothetical protein of unknown function (DUF2482); Region: DUF2482; pfam10655 158879005698 Protein of unknown function (DUF1270); Region: DUF1270; pfam06900 158879005699 Domain of unknown function (DUF771); Region: DUF771; cl09962 158879005700 Hypothetical protein (DUF2513); Region: DUF2513; pfam10711 158879005701 AntA/AntB antirepressor; Region: AntA; cl01430 158879005702 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 158879005703 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 158879005704 Protein of unknown function (DUF2829); Region: DUF2829; pfam11195 158879005705 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 158879005706 non-specific DNA binding site [nucleotide binding]; other site 158879005707 salt bridge; other site 158879005708 sequence-specific DNA binding site [nucleotide binding]; other site 158879005709 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 158879005710 non-specific DNA binding site [nucleotide binding]; other site 158879005711 salt bridge; other site 158879005712 sequence-specific DNA binding site [nucleotide binding]; other site 158879005713 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 158879005714 Catalytic site [active] 158879005715 DNA polymerase III subunit epsilon; Validated; Region: PRK06195 158879005716 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 158879005717 active site 158879005718 catalytic site [active] 158879005719 substrate binding site [chemical binding]; other site 158879005720 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 158879005721 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 158879005722 active site 158879005723 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 158879005724 Phage integrase family; Region: Phage_integrase; pfam00589 158879005725 Int/Topo IB signature motif; other site 158879005726 Neutral sphingomyelinases (nSMase) catalyze the hydrolysis of sphingomyelin in biological membranes to ceramide and phosphorylcholine; Region: nSMase; cd09078 158879005727 putative catalytic site [active] 158879005728 phosphate binding site [ion binding]; other site 158879005729 metal binding site A [ion binding]; metal-binding site 158879005730 metal binding site C [ion binding]; metal-binding site 158879005731 metal binding site B [ion binding]; metal-binding site 158879005732 Leukocidin/Hemolysin toxin family; Region: Leukocidin; cl08468 158879005733 Leukocidin/Hemolysin toxin family; Region: Leukocidin; cl08468 158879005734 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08588 158879005735 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 158879005736 metal binding site [ion binding]; metal-binding site 158879005737 dimer interface [polypeptide binding]; other site 158879005738 Cation transport protein; Region: TrkH; cl10514 158879005739 Cation transport protein; Region: TrkH; cl10514 158879005740 Cation transport protein; Region: TrkH; cl10514 158879005741 Staphylococcal/Streptococcal toxin, OB-fold domain; Region: Stap_Strp_toxin; pfam01123 158879005742 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 158879005743 Pathogenicity island SaPIn1 158879005744 Staphylococcal/Streptococcal toxin, OB-fold domain; Region: Stap_Strp_toxin; pfam01123 158879005745 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 158879005746 superantigen-like protein; Reviewed; Region: PRK13350 158879005747 Staphylococcal/Streptococcal toxin, OB-fold domain; Region: Stap_Strp_toxin; pfam01123 158879005748 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 158879005749 Terminase small subunit; Region: Terminase_2; cl01513 158879005750 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cl00264 158879005751 hydrolase, hydrolyzing O-glycosyl compounds; Region: PLN02219; cl14104 158879005752 Domain of unknown function (DUF927); Region: DUF927; cl12098 158879005753 Predicted GTPase [General function prediction only]; Region: COG2403 158879005754 Primase C terminal 1 (PriCT-1); Region: PriCT_1; cl07362 158879005755 Protein of unknown function (DUF1474); Region: DUF1474; pfam07342 158879005756 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 158879005757 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 158879005758 non-specific DNA binding site [nucleotide binding]; other site 158879005759 salt bridge; other site 158879005760 sequence-specific DNA binding site [nucleotide binding]; other site 158879005761 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 158879005762 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 158879005763 Phage integrase family; Region: Phage_integrase; pfam00589 158879005764 Int/Topo IB signature motif; other site 158879005765 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 158879005766 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 158879005767 ring oligomerisation interface [polypeptide binding]; other site 158879005768 ATP/Mg binding site [chemical binding]; other site 158879005769 stacking interactions; other site 158879005770 hinge regions; other site 158879005771 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 158879005772 oligomerisation interface [polypeptide binding]; other site 158879005773 mobile loop; other site 158879005774 roof hairpin; other site 158879005775 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 158879005776 Nitroreductase-like family 4. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_4; cd02140 158879005777 dimer interface [polypeptide binding]; other site 158879005778 FMN binding site [chemical binding]; other site 158879005779 Predicted amidohydrolase [General function prediction only]; Region: COG0388 158879005780 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 158879005781 putative active site [active] 158879005782 catalytic triad [active] 158879005783 putative dimer interface [polypeptide binding]; other site 158879005784 delta-hemolysin; Provisional; Region: PRK14752 158879005785 Accessory gene regulator B; Region: AgrB; cl01873 158879005786 Staphylococcal AgrD protein; Region: AgrD; cl05477 158879005787 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 158879005788 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 158879005789 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 158879005790 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 158879005791 active site 158879005792 phosphorylation site [posttranslational modification] 158879005793 intermolecular recognition site; other site 158879005794 dimerization interface [polypeptide binding]; other site 158879005795 LytTr DNA-binding domain; Region: LytTR; cl04498 158879005796 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 158879005797 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 158879005798 putative substrate binding site [chemical binding]; other site 158879005799 putative ATP binding site [chemical binding]; other site 158879005800 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 158879005801 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 158879005802 substrate binding [chemical binding]; other site 158879005803 active site 158879005804 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 158879005805 Transcriptional regulators [Transcription]; Region: PurR; COG1609 158879005806 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 158879005807 DNA binding site [nucleotide binding] 158879005808 domain linker motif; other site 158879005809 Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_TreR_like; cd01542 158879005810 dimerization interface [polypeptide binding]; other site 158879005811 ligand binding site [chemical binding]; other site 158879005812 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 158879005813 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 158879005814 CPxP motif; other site 158879005815 YeeE/YedE family (DUF395); Region: DUF395; cl01018 158879005816 YeeE/YedE family (DUF395); Region: DUF395; cl01018 158879005817 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 158879005818 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 158879005819 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879005820 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 158879005821 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 158879005822 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 158879005823 ABC transporter; Region: ABC_tran_2; pfam12848 158879005824 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 158879005825 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: MutS; COG0249 158879005826 MutS-like 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...; Region: ABC_MutS-like; cd03283 158879005827 Walker A/P-loop; other site 158879005828 ATP binding site [chemical binding]; other site 158879005829 Q-loop/lid; other site 158879005830 ABC transporter signature motif; other site 158879005831 Walker B; other site 158879005832 D-loop; other site 158879005833 H-loop/switch region; other site 158879005834 UGMP family protein; Validated; Region: PRK09604 158879005835 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 158879005836 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 158879005837 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 158879005838 Coenzyme A binding pocket [chemical binding]; other site 158879005839 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 158879005840 Glycoprotease family; Region: Peptidase_M22; pfam00814 158879005841 Uncharacterised P-loop hydrolase UPF0079; Region: UPF0079; cl00520 158879005842 Dehydratase family; Region: ILVD_EDD; cl00340 158879005843 6-phosphogluconate dehydratase; Region: edd; TIGR01196 158879005844 acetolactate synthase catalytic subunit; Reviewed; Region: PRK07710 158879005845 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 158879005846 PYR/PP interface [polypeptide binding]; other site 158879005847 dimer interface [polypeptide binding]; other site 158879005848 TPP binding site [chemical binding]; other site 158879005849 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 158879005850 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 158879005851 TPP-binding site [chemical binding]; other site 158879005852 dimer interface [polypeptide binding]; other site 158879005853 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 158879005854 ketol-acid reductoisomerase; Provisional; Region: PRK05479 158879005855 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879005856 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 158879005857 2-isopropylmalate synthase; Validated; Region: PRK00915 158879005858 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 158879005859 active site 158879005860 catalytic residues [active] 158879005861 metal binding site [ion binding]; metal-binding site 158879005862 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 158879005863 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 158879005864 tartrate dehydrogenase; Provisional; Region: PRK08194 158879005865 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 158879005866 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 158879005867 substrate binding site [chemical binding]; other site 158879005868 ligand binding site [chemical binding]; other site 158879005869 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 158879005870 substrate binding site [chemical binding]; other site 158879005871 threonine dehydratase; Validated; Region: PRK08639 158879005872 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 158879005873 tetramer interface [polypeptide binding]; other site 158879005874 pyridoxal 5'-phosphate binding site [chemical binding]; other site 158879005875 catalytic residue [active] 158879005876 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 158879005877 putative Ile/Val binding site [chemical binding]; other site 158879005878 hypothetical protein; Provisional; Region: PRK04351 158879005879 SprT homologues; Region: SprT; cl01182 158879005880 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 158879005881 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 158879005882 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 158879005883 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 158879005884 RNA binding site [nucleotide binding]; other site 158879005885 RNA polymerase sigma factor SigB; Validated; Region: PRK08583 158879005886 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 158879005887 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 158879005888 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 158879005889 DNA binding residues [nucleotide binding] 158879005890 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 158879005891 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 158879005892 anti sigma factor interaction site; other site 158879005893 regulatory phosphorylation site [posttranslational modification]; other site 158879005894 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 158879005895 Phosphoserine phosphatase RsbU, N-terminal domain; Region: RsbU_N; pfam08673 158879005896 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 158879005897 PemK-like protein; Region: PemK; cl00995 158879005898 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 158879005899 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 158879005900 active site 158879005901 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 158879005902 dimer interface [polypeptide binding]; other site 158879005903 substrate binding site [chemical binding]; other site 158879005904 catalytic residues [active] 158879005905 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 158879005906 Bacterial membrane flanked domain; Region: DUF304; cl01348 158879005907 Predicted membrane protein [Function unknown]; Region: COG3428 158879005908 Bacterial membrane flanked domain; Region: DUF304; cl01348 158879005909 Bacterial membrane flanked domain; Region: DUF304; cl01348 158879005910 Bacterial membrane flanked domain; Region: DUF304; cl01348 158879005911 K+-transporting ATPase, c chain; Region: KdpC; cl00944 158879005912 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 158879005913 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 158879005914 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 158879005915 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 158879005916 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 158879005917 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 158879005918 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 158879005919 Ligand Binding Site [chemical binding]; other site 158879005920 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 158879005921 dimer interface [polypeptide binding]; other site 158879005922 phosphorylation site [posttranslational modification] 158879005923 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 158879005924 ATP binding site [chemical binding]; other site 158879005925 Mg2+ binding site [ion binding]; other site 158879005926 G-X-G motif; other site 158879005927 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 158879005928 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 158879005929 active site 158879005930 phosphorylation site [posttranslational modification] 158879005931 intermolecular recognition site; other site 158879005932 dimerization interface [polypeptide binding]; other site 158879005933 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 158879005934 DNA binding site [nucleotide binding] 158879005935 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 158879005936 Transposase; Region: DDE_Tnp_ISL3; pfam01610 158879005937 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 158879005938 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 158879005939 ATP binding site [chemical binding]; other site 158879005940 Mg++ binding site [ion binding]; other site 158879005941 motif III; other site 158879005942 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 158879005943 nucleotide binding region [chemical binding]; other site 158879005944 ATP-binding site [chemical binding]; other site 158879005945 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 158879005946 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 158879005947 Mur ligase middle domain; Region: Mur_ligase_M; cl15713 158879005948 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 158879005949 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 158879005950 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 158879005951 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 158879005952 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 158879005953 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; cl00207 158879005954 Staphylococcus aureus copper-sensitive operon repressor (CsoR), and related domains; this family was previously known as part of DUF156; Region: SaCsoR-like_DUF156; cd10152 158879005955 putative homotetramer interface [polypeptide binding]; other site 158879005956 putative homodimer interface [polypeptide binding]; other site 158879005957 allosteric switch controlling residues; other site 158879005958 putative metal binding site [ion binding]; other site 158879005959 putative homodimer-homodimer interface [polypeptide binding]; other site 158879005960 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 158879005961 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 158879005962 putative active site [active] 158879005963 catalytic site [active] 158879005964 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 158879005965 putative active site [active] 158879005966 catalytic site [active] 158879005967 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 158879005968 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 158879005969 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 158879005970 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 158879005971 thiamine phosphate binding site [chemical binding]; other site 158879005972 active site 158879005973 pyrophosphate binding site [ion binding]; other site 158879005974 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 158879005975 substrate binding site [chemical binding]; other site 158879005976 multimerization interface [polypeptide binding]; other site 158879005977 ATP binding site [chemical binding]; other site 158879005978 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 158879005979 dimer interface [polypeptide binding]; other site 158879005980 substrate binding site [chemical binding]; other site 158879005981 ATP binding site [chemical binding]; other site 158879005982 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cl15243 158879005983 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 158879005984 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 158879005985 dimer interface [polypeptide binding]; other site 158879005986 ssDNA binding site [nucleotide binding]; other site 158879005987 tetramer (dimer of dimers) interface [polypeptide binding]; other site 158879005988 YwpF-like protein; Region: YwpF; pfam14183 158879005989 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 158879005990 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 158879005991 hinge; other site 158879005992 active site 158879005993 Protein of unknown function (DUF1146); Region: DUF1146; cl11486 158879005994 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK14735 158879005995 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 158879005996 ATP synthase, Delta/Epsilon chain, long alpha-helix domain; Region: ATP-synt_DE; pfam00401 158879005997 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 158879005998 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 158879005999 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 158879006000 alpha subunit interaction interface [polypeptide binding]; other site 158879006001 Walker A motif; other site 158879006002 ATP binding site [chemical binding]; other site 158879006003 Walker B motif; other site 158879006004 inhibitor binding site; inhibition site 158879006005 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 158879006006 NADH:ubiquinone oxidoreductase 27 kD subunit [Energy production and conversion]; Region: NuoC; cl00365 158879006007 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 158879006008 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 158879006009 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 158879006010 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 158879006011 beta subunit interaction interface [polypeptide binding]; other site 158879006012 Walker A motif; other site 158879006013 ATP binding site [chemical binding]; other site 158879006014 Walker B motif; other site 158879006015 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 158879006016 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; cl15360 158879006017 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 158879006018 Mitochondrial ATP synthase B chain precursor (ATP-synt_B); Region: Mt_ATP-synt_B; cl07975 158879006019 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 158879006020 ATP synthase subunit C; Region: ATP-synt_C; cl00466 158879006021 ATP synthase A chain; Region: ATP-synt_A; cl00413 158879006022 Bacterial ATP synthase I; Region: Bac_ATP_syn_I; pfam05468 158879006023 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 158879006024 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 158879006025 active site 158879006026 homodimer interface [polypeptide binding]; other site 158879006027 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 158879006028 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 158879006029 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 158879006030 dimer interface [polypeptide binding]; other site 158879006031 glycine-pyridoxal phosphate binding site [chemical binding]; other site 158879006032 active site 158879006033 folate binding site [chemical binding]; other site 158879006034 Protein of unknown function (DUF436); Region: DUF436; cl01860 158879006035 Low molecular weight phosphatase family; Region: LMWPc; cd00115 158879006036 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 158879006037 active site 158879006038 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 158879006039 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 158879006040 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 158879006041 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 158879006042 S-adenosylmethionine binding site [chemical binding]; other site 158879006043 peptide chain release factor 1; Validated; Region: prfA; PRK00591 158879006044 RF-1 domain; Region: RF-1; cl02875 158879006045 RF-1 domain; Region: RF-1; cl02875 158879006046 Thymidine kinase; Region: TK; cl00631 158879006047 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 158879006048 transcription termination factor Rho; Provisional; Region: rho; PRK09376 158879006049 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 158879006050 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 158879006051 RNA binding site [nucleotide binding]; other site 158879006052 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 158879006053 multimer interface [polypeptide binding]; other site 158879006054 Walker A motif; other site 158879006055 ATP binding site [chemical binding]; other site 158879006056 Walker B motif; other site 158879006057 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 158879006058 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 158879006059 NAD binding site [chemical binding]; other site 158879006060 catalytic residues [active] 158879006061 Helix-turn-helix domains; Region: HTH; cl00088 158879006062 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 158879006063 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 158879006064 hinge; other site 158879006065 active site 158879006066 hypothetical protein; Provisional; Region: PRK08185 158879006067 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 158879006068 intersubunit interface [polypeptide binding]; other site 158879006069 active site 158879006070 zinc binding site [ion binding]; other site 158879006071 Na+ binding site [ion binding]; other site 158879006072 Protein of unknown function (DUF2529); Region: DUF2529; pfam10740 158879006073 CTP synthetase; Validated; Region: pyrG; PRK05380 158879006074 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 158879006075 Catalytic site [active] 158879006076 active site 158879006077 UTP binding site [chemical binding]; other site 158879006078 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 158879006079 active site 158879006080 putative oxyanion hole; other site 158879006081 catalytic triad [active] 158879006082 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; cl01319 158879006083 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 158879006084 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 158879006085 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 158879006086 pantothenate kinase, eukaryotic/staphyloccocal type; Region: panK_eukar; TIGR00555 158879006087 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 158879006088 Carbamoylphosphate synthase large subunit (split gene in MJ) [Amino acid transport and metabolism / Nucleotide transport and metabolism]; Region: CarB; COG0458 158879006089 Biotin carboxylase [Lipid metabolism]; Region: AccC; COG0439 158879006090 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 158879006091 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 158879006092 metal binding site [ion binding]; metal-binding site 158879006093 S-Ribosylhomocysteinase (LuxS); Region: LuxS; cl00802 158879006094 Predicted membrane protein [Function unknown]; Region: COG4270 158879006095 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 158879006096 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 158879006097 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 158879006098 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 158879006099 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 158879006100 intersubunit interface [polypeptide binding]; other site 158879006101 active site 158879006102 catalytic residue [active] 158879006103 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 158879006104 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 158879006105 Ferritin-like domain; Region: Ferritin; pfam00210 158879006106 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 158879006107 dimerization interface [polypeptide binding]; other site 158879006108 DPS ferroxidase diiron center [ion binding]; other site 158879006109 ion pore; other site 158879006110 Protein of unknown function, DUF393; Region: DUF393; cl01136 158879006111 EVE domain; Region: EVE; cl00728 158879006112 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 158879006113 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 158879006114 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 158879006115 NAD(P) binding site [chemical binding]; other site 158879006116 putative active site [active] 158879006117 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 158879006118 dimerization interface [polypeptide binding]; other site 158879006119 putative DNA binding site [nucleotide binding]; other site 158879006120 putative Zn2+ binding site [ion binding]; other site 158879006121 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 158879006122 Cation efflux family; Region: Cation_efflux; cl00316 158879006123 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 158879006124 S-adenosylmethionine binding site [chemical binding]; other site 158879006125 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 158879006126 S-adenosylmethionine binding site [chemical binding]; other site 158879006127 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 158879006128 active site 158879006129 NTP binding site [chemical binding]; other site 158879006130 metal binding triad [ion binding]; metal-binding site 158879006131 antibiotic binding site [chemical binding]; other site 158879006132 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 158879006133 Tn544B and related transposases, DNA breaking-rejoining enzymes, integrase/recombinases, catalytic domain. This CD includes various bacterial transposases similar to TnpB from transposon Tn554; Region: INT_Tn544B_C; cd01195 158879006134 Phage integrase family; Region: Phage_integrase; pfam00589 158879006135 Int/Topo IB signature motif; other site 158879006136 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 158879006137 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 158879006138 Tn544A and related transposases, DNA breaking-rejoining enzymes, integrase/recombinases, C-terminal catalytic domain. This CD includes various bacterial transposases similar to TnpA from transposon Tn554; Region: INT_Tn554A_C; cd01194 158879006139 Int/Topo IB signature motif; other site 158879006140 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 158879006141 Cytoadherence-linked asexual protein; Region: CLAG; pfam03805 158879006142 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 158879006143 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 158879006144 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 158879006145 active site 158879006146 motif I; other site 158879006147 motif II; other site 158879006148 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 158879006149 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 158879006150 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158879006151 Walker A/P-loop; other site 158879006152 ATP binding site [chemical binding]; other site 158879006153 Q-loop/lid; other site 158879006154 ABC transporter signature motif; other site 158879006155 Walker B; other site 158879006156 D-loop; other site 158879006157 H-loop/switch region; other site 158879006158 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 158879006159 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 158879006160 glutaminase active site [active] 158879006161 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 158879006162 dimer interface [polypeptide binding]; other site 158879006163 active site 158879006164 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 158879006165 dimer interface [polypeptide binding]; other site 158879006166 active site 158879006167 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 158879006168 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 158879006169 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 158879006170 active site 158879006171 P-loop; other site 158879006172 phosphorylation site [posttranslational modification] 158879006173 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 158879006174 Helix-turn-helix domains; Region: HTH; cl00088 158879006175 Helix-turn-helix domains; Region: HTH; cl00088 158879006176 PRD domain; Region: PRD; cl15445 158879006177 PRD domain; Region: PRD; cl15445 158879006178 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 158879006179 P-loop; other site 158879006180 active site 158879006181 phosphorylation site [posttranslational modification] 158879006182 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cl00163 158879006183 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 158879006184 active site 158879006185 phosphorylation site [posttranslational modification] 158879006186 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 158879006187 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 158879006188 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 158879006189 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 158879006190 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 158879006191 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 158879006192 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 158879006193 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 158879006194 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 158879006195 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 158879006196 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 158879006197 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 158879006198 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 158879006199 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 158879006200 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 158879006201 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 158879006202 active site 158879006203 substrate binding site [chemical binding]; other site 158879006204 metal binding site [ion binding]; metal-binding site 158879006205 YbbR-like protein; Region: YbbR; pfam07949 158879006206 YbbR-like protein; Region: YbbR; pfam07949 158879006207 TIGR00159 family protein; Region: TIGR00159 158879006208 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 158879006209 Arginase family; Region: Arginase; cl00306 158879006210 RecA-family ATPase [DNA replication, recombination, and repair]; Region: RepA; COG3598 158879006211 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 158879006212 Walker A motif; other site 158879006213 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 158879006214 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 158879006215 putative substrate translocation pore; other site 158879006216 Major Facilitator Superfamily; Region: MFS_1; pfam07690 158879006217 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 158879006218 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 158879006219 Haemolysin-III related; Region: HlyIII; cl03831 158879006220 UDPGlcNAc pyrophosphorylase catalayzes the synthesis of UDPGlcNAc; Region: UDPGlcNAc_PPase; cd04193 158879006221 substrate binding site; other site 158879006222 dimerization interface; other site 158879006223 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 158879006224 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 158879006225 Nucleoside recognition; Region: Gate; cl00486 158879006226 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 158879006227 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 158879006228 ABC-ATPase subunit interface; other site 158879006229 dimer interface [polypeptide binding]; other site 158879006230 putative PBP binding regions; other site 158879006231 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 158879006232 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 158879006233 ABC-ATPase subunit interface; other site 158879006234 dimer interface [polypeptide binding]; other site 158879006235 putative PBP binding regions; other site 158879006236 ABC-type Fe3+-citrate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FecB; COG4594 158879006237 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 158879006238 siderophore binding site; other site 158879006239 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 158879006240 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase-like 1; Region: PLPDE_III_AR_like_1; cd06815 158879006241 dimer interface [polypeptide binding]; other site 158879006242 active site 158879006243 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 158879006244 substrate binding site [chemical binding]; other site 158879006245 catalytic residue [active] 158879006246 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 158879006247 IucA / IucC family; Region: IucA_IucC; pfam04183 158879006248 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 158879006249 H+ Antiporter protein; Region: 2A0121; TIGR00900 158879006250 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 158879006251 putative substrate translocation pore; other site 158879006252 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 158879006253 IucA / IucC family; Region: IucA_IucC; pfam04183 158879006254 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 158879006255 Asp23 family; Region: Asp23; cl00574 158879006256 Small integral membrane protein (DUF2273); Region: DUF2273; cl11575 158879006257 BCCT family transporter; Region: BCCT; cl00569 158879006258 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 158879006259 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 158879006260 putative NAD(P) binding site [chemical binding]; other site 158879006261 dimer interface [polypeptide binding]; other site 158879006262 leukotriene B4 12-hydroxydehydrogenase/15-oxo-prostaglandin 13-reductase; Region: B4_12hDH; TIGR02825 158879006263 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 158879006264 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 158879006265 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 158879006266 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 158879006267 PTS_IIB: subunit IIB of enzyme II (EII) is the central energy-coupling domain of the phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In the multienzyme PTS complex, EII is a carbohydrate-specific permease consisting of two cytoplasmic...; Region: PTS_IIB; cl10014 158879006268 P-loop; other site 158879006269 active site 158879006270 phosphorylation site [posttranslational modification] 158879006271 PTS_IIA, PTS system, lactose/cellobiose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_lac; cd00215 158879006272 methionine cluster; other site 158879006273 active site 158879006274 phosphorylation site [posttranslational modification] 158879006275 metal binding site [ion binding]; metal-binding site 158879006276 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 158879006277 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 158879006278 tagatose-6-phosphate kinase; Region: lacC; TIGR01231 158879006279 putative substrate binding site [chemical binding]; other site 158879006280 putative ATP binding site [chemical binding]; other site 158879006281 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 158879006282 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 158879006283 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 158879006284 Helix-turn-helix domains; Region: HTH; cl00088 158879006285 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 158879006286 NAD-dependent deacetylase; Provisional; Region: PRK14138 158879006287 SIR2H: Uncharacterized prokaryotic Sir2 homologs from several gram positive bacterial species and Fusobacteria; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone...; Region: SIR2H; cd01411 158879006288 NAD+ binding site [chemical binding]; other site 158879006289 substrate binding site [chemical binding]; other site 158879006290 putative Zn binding site [ion binding]; other site 158879006291 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 158879006292 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 158879006293 active site 158879006294 catalytic tetrad [active] 158879006295 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 158879006296 DNA binding residues [nucleotide binding] 158879006297 putative dimer interface [polypeptide binding]; other site 158879006298 Glycosaminoglycan (GAG) polysaccharide lyase family. This family consists of a group of secreted bacterial lyase enzymes capable of acting on glycosaminoglycans, such as hyaluronan and chondroitin, in the extracellular matrix of host tissues; Region: GAG_Lyase; cd01083 158879006299 substrate binding site [chemical binding]; other site 158879006300 catalytic residues [active] 158879006301 Peptidase family M23; Region: Peptidase_M23; pfam01551 158879006302 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 158879006303 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 158879006304 active site 158879006305 motif I; other site 158879006306 motif II; other site 158879006307 MAP domain; Region: MAP; pfam03642 158879006308 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; cl01408 158879006309 acetolactate synthase; Reviewed; Region: PRK08617 158879006310 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 158879006311 PYR/PP interface [polypeptide binding]; other site 158879006312 dimer interface [polypeptide binding]; other site 158879006313 TPP binding site [chemical binding]; other site 158879006314 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 158879006315 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 158879006316 TPP-binding site [chemical binding]; other site 158879006317 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 158879006318 RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons. The polymerase reaction of this enzyme leads to the production of a unique RNA-DNA complex called msDNA (multicopy single-stranded (ss)DNA) in which a small ssDNA...; Region: RT_Bac_retron_II; cd03487 158879006319 putative active site [active] 158879006320 putative NTP binding site [chemical binding]; other site 158879006321 putative nucleic acid binding site [nucleotide binding]; other site 158879006322 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158879006323 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 158879006324 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 158879006325 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 158879006326 23S rRNA interface [nucleotide binding]; other site 158879006327 L3 interface [polypeptide binding]; other site 158879006328 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 158879006329 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 158879006330 dimerization interface 3.5A [polypeptide binding]; other site 158879006331 active site 158879006332 Cobalt transport protein; Region: CbiQ; cl00463 158879006333 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13646 158879006334 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 158879006335 Walker A/P-loop; other site 158879006336 ATP binding site [chemical binding]; other site 158879006337 Q-loop/lid; other site 158879006338 ABC transporter signature motif; other site 158879006339 Walker B; other site 158879006340 D-loop; other site 158879006341 H-loop/switch region; other site 158879006342 Cobalt ATP-binding cassette C terminal; Region: CoABC_C; pfam12370 158879006343 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13648 158879006344 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 158879006345 Walker A/P-loop; other site 158879006346 ATP binding site [chemical binding]; other site 158879006347 Q-loop/lid; other site 158879006348 ABC transporter signature motif; other site 158879006349 Walker B; other site 158879006350 D-loop; other site 158879006351 H-loop/switch region; other site 158879006352 Cobalt ATP-binding cassette C terminal; Region: CoABC_C; pfam12370 158879006353 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 158879006354 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 158879006355 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 158879006356 alphaNTD homodimer interface [polypeptide binding]; other site 158879006357 alphaNTD - beta interaction site [polypeptide binding]; other site 158879006358 alphaNTD - beta' interaction site [polypeptide binding]; other site 158879006359 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 158879006360 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 158879006361 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 158879006362 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 158879006363 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 158879006364 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 158879006365 rRNA binding site [nucleotide binding]; other site 158879006366 predicted 30S ribosome binding site; other site 158879006367 adenylate kinase; Reviewed; Region: adk; PRK00279 158879006368 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 158879006369 AMP-binding site [chemical binding]; other site 158879006370 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 158879006371 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 158879006372 SecY translocase; Region: SecY; pfam00344 158879006373 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 158879006374 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 158879006375 23S rRNA binding site [nucleotide binding]; other site 158879006376 ribosomal protein S5, bacterial/organelle type; Region: rpsE_bact; TIGR01021 158879006377 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 158879006378 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 158879006379 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 158879006380 5S rRNA interface [nucleotide binding]; other site 158879006381 L27 interface [polypeptide binding]; other site 158879006382 23S rRNA interface [nucleotide binding]; other site 158879006383 L5 interface [polypeptide binding]; other site 158879006384 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 158879006385 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 158879006386 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 158879006387 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 158879006388 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 158879006389 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 158879006390 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 158879006391 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 158879006392 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 158879006393 KOW motif; Region: KOW; cl00354 158879006394 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 158879006395 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 158879006396 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 158879006397 23S rRNA interface [nucleotide binding]; other site 158879006398 putative translocon interaction site; other site 158879006399 signal recognition particle (SRP54) interaction site; other site 158879006400 L23 interface [polypeptide binding]; other site 158879006401 trigger factor interaction site; other site 158879006402 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 158879006403 23S rRNA interface [nucleotide binding]; other site 158879006404 5S rRNA interface [nucleotide binding]; other site 158879006405 putative antibiotic binding site [chemical binding]; other site 158879006406 L25 interface [polypeptide binding]; other site 158879006407 L27 interface [polypeptide binding]; other site 158879006408 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 158879006409 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 158879006410 G-X-X-G motif; other site 158879006411 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 158879006412 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 158879006413 putative translocon binding site; other site 158879006414 protein-rRNA interface [nucleotide binding]; other site 158879006415 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 158879006416 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 158879006417 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 158879006418 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 158879006419 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 158879006420 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 158879006421 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 158879006422 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 158879006423 Permease family; Region: Xan_ur_permease; cl00967 158879006424 DNA topoisomerase III; Provisional; Region: PRK07726 158879006425 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 158879006426 active site 158879006427 putative interdomain interaction site [polypeptide binding]; other site 158879006428 putative metal-binding site [ion binding]; other site 158879006429 putative nucleotide binding site [chemical binding]; other site 158879006430 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 158879006431 domain I; other site 158879006432 DNA binding groove [nucleotide binding] 158879006433 phosphate binding site [ion binding]; other site 158879006434 domain II; other site 158879006435 domain III; other site 158879006436 nucleotide binding site [chemical binding]; other site 158879006437 catalytic site [active] 158879006438 domain IV; other site 158879006439 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 158879006440 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 158879006441 Putative glucose uptake permease [Carbohydrate transport and metabolism]; Region: GlcU; COG4975 158879006442 L-rhamnose-proton symport protein (RhaT); Region: RhaT; cl05728 158879006443 Protein of unknown function (DUF3125); Region: DUF3125; pfam11323 158879006444 Membrane transport protein; Region: Mem_trans; cl09117 158879006445 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 158879006446 FemAB family; Region: FemAB; cl11444 158879006447 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 158879006448 Helix-turn-helix domains; Region: HTH; cl00088 158879006449 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 158879006450 Major Facilitator Superfamily; Region: MFS_1; pfam07690 158879006451 putative substrate translocation pore; other site 158879006452 Helix-turn-helix domains; Region: HTH; cl00088 158879006453 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 158879006454 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 158879006455 FeS/SAM binding site; other site 158879006456 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 158879006457 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 158879006458 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 158879006459 GTP binding site; other site 158879006460 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 158879006461 MoaE interaction surface [polypeptide binding]; other site 158879006462 MoeB interaction surface [polypeptide binding]; other site 158879006463 thiocarboxylated glycine; other site 158879006464 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 158879006465 MoaE homodimer interface [polypeptide binding]; other site 158879006466 MoaD interaction [polypeptide binding]; other site 158879006467 active site residues [active] 158879006468 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158879006469 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 158879006470 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 158879006471 dimer interface [polypeptide binding]; other site 158879006472 putative functional site; other site 158879006473 putative MPT binding site; other site 158879006474 MoaC family, prokaryotic and eukaryotic. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine...; Region: MoaC_PE; cd01420 158879006475 trimer interface [polypeptide binding]; other site 158879006476 dimer interface [polypeptide binding]; other site 158879006477 putative active site [active] 158879006478 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 158879006479 MPT binding site; other site 158879006480 trimer interface [polypeptide binding]; other site 158879006481 thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated; Region: PRK07688 158879006482 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 158879006483 ATP binding site [chemical binding]; other site 158879006484 substrate interface [chemical binding]; other site 158879006485 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158879006486 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 158879006487 Walker A/P-loop; other site 158879006488 ATP binding site [chemical binding]; other site 158879006489 Q-loop/lid; other site 158879006490 ABC transporter signature motif; other site 158879006491 Walker B; other site 158879006492 D-loop; other site 158879006493 H-loop/switch region; other site 158879006494 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 158879006495 dimer interface [polypeptide binding]; other site 158879006496 conserved gate region; other site 158879006497 putative PBP binding loops; other site 158879006498 ABC-ATPase subunit interface; other site 158879006499 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 158879006500 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 158879006501 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 158879006502 Coenzyme A binding pocket [chemical binding]; other site 158879006503 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 158879006504 nuc_hydro_ TvIAG: Nucleoside hydrolases similar to the Inosine-adenosine-guanosine-preferring nucleoside hydrolase from Trypanosoma vivax. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base; Region: nuc_hydro_TvIAG; cd02647 158879006505 active site 158879006506 dimerization interface [polypeptide binding]; other site 158879006507 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 158879006508 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 158879006509 intersubunit interface [polypeptide binding]; other site 158879006510 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 158879006511 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 158879006512 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 158879006513 Urea transporter; Region: UT; cl01829 158879006514 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 158879006515 alpha-gamma subunit interface [polypeptide binding]; other site 158879006516 beta-gamma subunit interface [polypeptide binding]; other site 158879006517 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 158879006518 gamma-beta subunit interface [polypeptide binding]; other site 158879006519 alpha-beta subunit interface [polypeptide binding]; other site 158879006520 urease subunit alpha; Reviewed; Region: ureC; PRK13207 158879006521 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 158879006522 subunit interactions [polypeptide binding]; other site 158879006523 active site 158879006524 flap region; other site 158879006525 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 158879006526 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 158879006527 dimer interface [polypeptide binding]; other site 158879006528 catalytic residues [active] 158879006529 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 158879006530 UreF; Region: UreF; pfam01730 158879006531 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158879006532 UreD urease accessory protein; Region: UreD; cl00530 158879006533 Helix-turn-helix domains; Region: HTH; cl00088 158879006534 Helix-turn-helix domains; Region: HTH; cl00088 158879006535 Helix-turn-helix domains; Region: HTH; cl00088 158879006536 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 158879006537 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 158879006538 NlpC/P60 family; Region: NLPC_P60; cl11438 158879006539 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 158879006540 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 158879006541 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879006542 NAD/NADP octopine/nopaline dehydrogenase, alpha-helical domain; Region: Octopine_DH; pfam02317 158879006543 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3296 158879006544 NlpC/P60 family; Region: NLPC_P60; cl11438 158879006545 D-3-phosphoglycerate dehydrogenase; Region: PGDH; TIGR01327 158879006546 hypothetical protein; Provisional; Region: PRK06753 158879006547 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879006548 Beta- N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: LytD; COG4193 158879006549 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl00743 158879006550 Protein of unknown function (DUF1641); Region: DUF1641; cl01025 158879006551 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 158879006552 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 158879006553 4Fe-4S binding domain; Region: Fer4; cl02805 158879006554 4Fe-4S binding domain; Region: Fer4; cl02805 158879006555 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 158879006556 [4Fe-4S] binding site [ion binding]; other site 158879006557 molybdopterin cofactor binding site; other site 158879006558 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 158879006559 molybdopterin cofactor binding site; other site 158879006560 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 158879006561 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1; Region: IMPase_like; cd01637 158879006562 active site 158879006563 Predicted transcriptional regulator [Transcription]; Region: COG2378 158879006564 Helix-turn-helix domains; Region: HTH; cl00088 158879006565 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 158879006566 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 158879006567 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 158879006568 putative active site [active] 158879006569 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 158879006570 Amino acid permease; Region: AA_permease; cl00524 158879006571 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 158879006572 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 158879006573 active site 158879006574 motif I; other site 158879006575 motif II; other site 158879006576 Membrane transport protein; Region: Mem_trans; cl09117 158879006577 bile acid transporter; Region: bass; TIGR00841 158879006578 PTS system, alpha-glucoside-specific IIBC component; Region: PTS-IIBC-alpha; TIGR02005 158879006579 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 158879006580 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 158879006581 active site turn [active] 158879006582 phosphorylation site [posttranslational modification] 158879006583 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 158879006584 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 158879006585 putative active site [active] 158879006586 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 158879006587 putative hydrophobic ligand binding site [chemical binding]; other site 158879006588 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 158879006589 oxidoreductase; Provisional; Region: PRK07985 158879006590 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879006591 NAD(P) binding site [chemical binding]; other site 158879006592 active site 158879006593 M20 Peptidase Aminoacyclase-1 YxeP-like proteins, including YxeP, YtnL, YjiB and HipO2; Region: M20_Acy1_YxeP_like; cd05669 158879006594 amidohydrolase; Region: amidohydrolases; TIGR01891 158879006595 metal binding site [ion binding]; metal-binding site 158879006596 dimer interface [polypeptide binding]; other site 158879006597 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 158879006598 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 158879006599 active site 158879006600 urocanate hydratase; Provisional; Region: PRK05414 158879006601 Transcriptional regulator [Transcription]; Region: LysR; COG0583 158879006602 Helix-turn-helix domains; Region: HTH; cl00088 158879006603 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 158879006604 dimerization interface [polypeptide binding]; other site 158879006605 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 158879006606 FosB, a fosfomycin resistance protein, catalyzes the Mg(II) dependent addition of L-cysteine to the epoxide ring of fosfomycin; Region: FosB; cd08363 158879006607 putative active site [active] 158879006608 putative Mg binding site [ion binding]; other site 158879006609 Arginase family; Region: Arginase; cl00306 158879006610 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 158879006611 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 158879006612 tetramer (dimer of dimers) interface [polypeptide binding]; other site 158879006613 active site 158879006614 dimer interface [polypeptide binding]; other site 158879006615 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 158879006616 MOSC domain; Region: MOSC; pfam03473 158879006617 3-alpha domain; Region: 3-alpha; pfam03475 158879006618 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 158879006619 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 158879006620 active site 158879006621 catalytic residues [active] 158879006622 Uncharacterised BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 158879006623 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 158879006624 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 158879006625 This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity. In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily...; Region: ABC_putative_ATPase; cd03269 158879006626 Walker A/P-loop; other site 158879006627 ATP binding site [chemical binding]; other site 158879006628 Q-loop/lid; other site 158879006629 ABC transporter signature motif; other site 158879006630 Walker B; other site 158879006631 D-loop; other site 158879006632 H-loop/switch region; other site 158879006633 Protein of unknown function (DUF805); Region: DUF805; cl01224 158879006634 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 158879006635 active site 158879006636 DNA binding site [nucleotide binding] 158879006637 Sodium/glutamate symporter; Region: Glt_symporter; pfam03616 158879006638 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 158879006639 Isopentenyl-diphosphate:dimethylallyl diphosphate isomerase type 2 (IDI-2) FMN-binding domain. Two types of IDIs have been characterized at present. The long known IDI-1 is only dependent on divalent metals for activity, whereas IDI-2 requires a metal; Region: IDI-2_FMN; cd02811 158879006640 homotetramer interface [polypeptide binding]; other site 158879006641 FMN binding site [chemical binding]; other site 158879006642 homodimer contacts [polypeptide binding]; other site 158879006643 putative active site [active] 158879006644 putative substrate binding site [chemical binding]; other site 158879006645 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 158879006646 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 158879006647 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 158879006648 active site 158879006649 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 158879006650 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 158879006651 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 158879006652 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 158879006653 putative substrate translocation pore; other site 158879006654 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 158879006655 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 158879006656 E3 interaction surface; other site 158879006657 lipoyl attachment site [posttranslational modification]; other site 158879006658 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 158879006659 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 158879006660 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 158879006661 putative substrate translocation pore; other site 158879006662 Predicted membrane protein [Function unknown]; Region: COG4640 158879006663 Helix-turn-helix domains; Region: HTH; cl00088 158879006664 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 158879006665 putative active site [active] 158879006666 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 158879006667 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 158879006668 Walker A/P-loop; other site 158879006669 ATP binding site [chemical binding]; other site 158879006670 Q-loop/lid; other site 158879006671 ABC transporter signature motif; other site 158879006672 Walker B; other site 158879006673 D-loop; other site 158879006674 H-loop/switch region; other site 158879006675 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 158879006676 FtsX-like permease family; Region: FtsX; pfam02687 158879006677 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 158879006678 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 158879006679 active site 158879006680 phosphorylation site [posttranslational modification] 158879006681 intermolecular recognition site; other site 158879006682 dimerization interface [polypeptide binding]; other site 158879006683 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 158879006684 DNA binding site [nucleotide binding] 158879006685 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 158879006686 dimerization interface [polypeptide binding]; other site 158879006687 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 158879006688 dimer interface [polypeptide binding]; other site 158879006689 phosphorylation site [posttranslational modification] 158879006690 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 158879006691 ATP binding site [chemical binding]; other site 158879006692 Mg2+ binding site [ion binding]; other site 158879006693 G-X-G motif; other site 158879006694 LytTr DNA-binding domain; Region: LytTR; cl04498 158879006695 Protein of unknown function (DUF3021); Region: DUF3021; pfam11457 158879006696 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879006697 Predicted dehydrogenase [General function prediction only]; Region: COG0579 158879006698 L-lactate permease; Region: Lactate_perm; cl00701 158879006699 glycolate transporter; Provisional; Region: PRK09695 158879006700 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 158879006701 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 158879006702 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 158879006703 Coenzyme A binding pocket [chemical binding]; other site 158879006704 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 158879006705 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 158879006706 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 158879006707 NAD(P) binding site [chemical binding]; other site 158879006708 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 158879006709 Coenzyme A binding pocket [chemical binding]; other site 158879006710 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 158879006711 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879006712 Protein of unknown function (DUF2871); Region: DUF2871; pfam11070 158879006713 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 158879006714 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 158879006715 ABC-2 type transporter; Region: ABC2_membrane; cl11417 158879006716 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 158879006717 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 158879006718 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 158879006719 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 158879006720 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 158879006721 active site turn [active] 158879006722 phosphorylation site [posttranslational modification] 158879006723 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 158879006724 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 158879006725 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 158879006726 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 158879006727 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 158879006728 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 158879006729 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 158879006730 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 158879006731 Protein of unknown function (DUF3139); Region: DUF3139; pfam11337 158879006732 Helix-turn-helix domains; Region: HTH; cl00088 158879006733 alpha-crystallin domain (ACD) found in alpha-crystallin-type small heat shock proteins, and a similar domain found in p23 (a cochaperone for Hsp90) and in other p23-like proteins; Region: alpha-crystallin-Hsps_p23-like; cl00175 158879006734 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 158879006735 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 158879006736 putative substrate translocation pore; other site 158879006737 Predicted Zn-dependent protease (DUF2268); Region: DUF2268; cl02316 158879006738 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 158879006739 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 158879006740 DNA binding residues [nucleotide binding] 158879006741 dimer interface [polypeptide binding]; other site 158879006742 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 158879006743 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 158879006744 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 158879006745 active site 158879006746 phosphorylation site [posttranslational modification] 158879006747 intermolecular recognition site; other site 158879006748 dimerization interface [polypeptide binding]; other site 158879006749 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 158879006750 DNA binding residues [nucleotide binding] 158879006751 dimerization interface [polypeptide binding]; other site 158879006752 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 158879006753 Histidine kinase; Region: HisKA_3; pfam07730 158879006754 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 158879006755 ATP binding site [chemical binding]; other site 158879006756 Mg2+ binding site [ion binding]; other site 158879006757 G-X-G motif; other site 158879006758 GAF domain; Region: GAF; cl00853 158879006759 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 158879006760 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 158879006761 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 158879006762 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 158879006763 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 158879006764 [4Fe-4S] binding site [ion binding]; other site 158879006765 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 158879006766 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 158879006767 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 158879006768 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 158879006769 molybdopterin cofactor binding site; other site 158879006770 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 158879006771 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 158879006772 [2Fe-2S] cluster binding site [ion binding]; other site 158879006773 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 158879006774 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879006775 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 158879006776 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 158879006777 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 158879006778 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 158879006779 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 158879006780 putative active site [active] 158879006781 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 158879006782 active site 158879006783 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 158879006784 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 158879006785 Coenzyme A binding pocket [chemical binding]; other site 158879006786 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 158879006787 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 158879006788 putative hydrophobic ligand binding site [chemical binding]; other site 158879006789 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 158879006790 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 158879006791 intersubunit interface [polypeptide binding]; other site 158879006792 YodA lipocalin-like domain; Region: YodA; cl01365 158879006793 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 158879006794 Phd_YefM; Region: PhdYeFM; cl09153 158879006795 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 158879006796 FemAB family; Region: FemAB; cl11444 158879006797 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 158879006798 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 158879006799 Walker A/P-loop; other site 158879006800 ATP binding site [chemical binding]; other site 158879006801 Q-loop/lid; other site 158879006802 ABC transporter signature motif; other site 158879006803 Walker B; other site 158879006804 D-loop; other site 158879006805 H-loop/switch region; other site 158879006806 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 158879006807 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 158879006808 putative PBP binding loops; other site 158879006809 dimer interface [polypeptide binding]; other site 158879006810 ABC-ATPase subunit interface; other site 158879006811 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 158879006812 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 158879006813 substrate binding pocket [chemical binding]; other site 158879006814 membrane-bound complex binding site; other site 158879006815 hinge residues; other site 158879006816 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 158879006817 Major Facilitator Superfamily; Region: MFS_1; pfam07690 158879006818 putative substrate translocation pore; other site 158879006819 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 158879006820 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 158879006821 catalytic core [active] 158879006822 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 158879006823 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 158879006824 Cation efflux family; Region: Cation_efflux; cl00316 158879006825 B domain; Region: B; pfam02216 158879006826 B domain; Region: B; pfam02216 158879006827 C3 binding domain 4 of IgG-bind protein SBI; Region: Sbi-IV; pfam11621 158879006828 Leukocidin/Hemolysin toxin family; Region: Leukocidin; cl08468 158879006829 Leukocidin/Hemolysin toxin family; Region: Leukocidin; cl08468 158879006830 Leukocidin/Hemolysin toxin family; Region: Leukocidin; cl08468 158879006831 6-carboxyhexanoate--CoA ligase; Region: BioW; cl00625 158879006832 Pimeloyl-CoA synthetase [Coenzyme metabolism]; Region: BioW; COG1424 158879006833 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 158879006834 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 158879006835 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 158879006836 catalytic residue [active] 158879006837 biotin synthase; Validated; Region: PRK06256 158879006838 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 158879006839 FeS/SAM binding site; other site 158879006840 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 158879006841 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 158879006842 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 158879006843 inhibitor-cofactor binding pocket; inhibition site 158879006844 pyridoxal 5'-phosphate binding site [chemical binding]; other site 158879006845 catalytic residue [active] 158879006846 phosphate acetyltransferase; Reviewed; Region: PRK05632 158879006847 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158879006848 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158879006849 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 158879006850 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 158879006851 Walker A/P-loop; other site 158879006852 ATP binding site [chemical binding]; other site 158879006853 Q-loop/lid; other site 158879006854 ABC transporter signature motif; other site 158879006855 Walker B; other site 158879006856 D-loop; other site 158879006857 H-loop/switch region; other site 158879006858 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 158879006859 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 158879006860 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158879006861 Walker A/P-loop; other site 158879006862 ATP binding site [chemical binding]; other site 158879006863 Q-loop/lid; other site 158879006864 ABC transporter signature motif; other site 158879006865 Walker B; other site 158879006866 D-loop; other site 158879006867 H-loop/switch region; other site 158879006868 GtrA-like protein; Region: GtrA; cl00971 158879006869 Glycerate kinase family; Region: Gly_kinase; cl00841 158879006870 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 158879006871 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 158879006872 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 158879006873 putative substrate translocation pore; other site 158879006874 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 158879006875 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 158879006876 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 158879006877 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 158879006878 active site 158879006879 metal binding site [ion binding]; metal-binding site 158879006880 Amino acid permease; Region: AA_permease; cl00524 158879006881 Amino acid permease; Region: AA_permease; cl00524 158879006882 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 158879006883 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 158879006884 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 158879006885 Amino acid permease; Region: AA_permease; cl00524 158879006886 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 158879006887 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 158879006888 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879006889 NAD(P) binding site [chemical binding]; other site 158879006890 active site 158879006891 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 158879006892 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879006893 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 158879006894 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 158879006895 putative substrate translocation pore; other site 158879006896 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 158879006897 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 158879006898 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 158879006899 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 158879006900 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 158879006901 OpuCA is a the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing in a hyperosmolar environment. ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of...; Region: ABC_OpuCA_Osmoprotection; cd03295 158879006902 glycine betaine/L-proline transport ATP binding subunit; Region: proV; TIGR01186 158879006903 Walker A/P-loop; other site 158879006904 ATP binding site [chemical binding]; other site 158879006905 Q-loop/lid; other site 158879006906 ABC transporter signature motif; other site 158879006907 Walker B; other site 158879006908 D-loop; other site 158879006909 H-loop/switch region; other site 158879006910 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in association with the ABC transporter OpuCA. OpuCA is the ATP binding component of a bacterial solute transporter that serves a protective role to cells growing...; Region: CBS_pair_ABC_OpuCA_assoc2; cd04583 158879006911 Protein of unknown function (DUF419); Region: DUF419; cl15265 158879006912 Amino acid permease; Region: AA_permease; cl00524 158879006913 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 158879006914 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 158879006915 substrate binding pocket [chemical binding]; other site 158879006916 catalytic triad [active] 158879006917 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 158879006918 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 158879006919 putative substrate translocation pore; other site 158879006920 Uncharacterised protein family (UPF0014); Region: UPF0014; cl00424 158879006921 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 158879006922 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 158879006923 Walker A/P-loop; other site 158879006924 ATP binding site [chemical binding]; other site 158879006925 Q-loop/lid; other site 158879006926 ABC transporter signature motif; other site 158879006927 Walker B; other site 158879006928 D-loop; other site 158879006929 H-loop/switch region; other site 158879006930 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 158879006931 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 158879006932 oligomer interface [polypeptide binding]; other site 158879006933 active site 158879006934 metal binding site [ion binding]; metal-binding site 158879006935 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 158879006936 Phd_YefM; Region: PhdYeFM; cl09153 158879006937 Protein of unknown function (DUF1307); Region: DUF1307; cl01981 158879006938 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 158879006939 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 158879006940 active site 158879006941 FMN binding site [chemical binding]; other site 158879006942 substrate binding site [chemical binding]; other site 158879006943 3Fe-4S cluster binding site [ion binding]; other site 158879006944 Protein of unknown function (DUF3125); Region: DUF3125; pfam11323 158879006945 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 158879006946 Major Facilitator Superfamily; Region: MFS_1; pfam07690 158879006947 putative substrate translocation pore; other site 158879006948 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 158879006949 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 158879006950 Walker A/P-loop; other site 158879006951 ATP binding site [chemical binding]; other site 158879006952 Q-loop/lid; other site 158879006953 ABC transporter signature motif; other site 158879006954 Walker B; other site 158879006955 D-loop; other site 158879006956 H-loop/switch region; other site 158879006957 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 158879006958 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 158879006959 Walker A/P-loop; other site 158879006960 ATP binding site [chemical binding]; other site 158879006961 Q-loop/lid; other site 158879006962 ABC transporter signature motif; other site 158879006963 Walker B; other site 158879006964 D-loop; other site 158879006965 H-loop/switch region; other site 158879006966 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 158879006967 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 158879006968 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 158879006969 dimer interface [polypeptide binding]; other site 158879006970 conserved gate region; other site 158879006971 ABC-ATPase subunit interface; other site 158879006972 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 158879006973 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 158879006974 dimer interface [polypeptide binding]; other site 158879006975 conserved gate region; other site 158879006976 putative PBP binding loops; other site 158879006977 ABC-ATPase subunit interface; other site 158879006978 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 158879006979 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 158879006980 substrate binding site [chemical binding]; other site 158879006981 Uncharacterized protein conserved in bacteria (DUF2338); Region: DUF2338; pfam10100 158879006982 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 158879006983 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 158879006984 Diaminopimelate epimerase [Amino acid transport and metabolism]; Region: DapF; COG0253 158879006985 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 158879006986 short chain dehydrogenase; Validated; Region: PRK08589 158879006987 classical (c) SDRs; Region: SDR_c; cd05233 158879006988 NAD(P) binding site [chemical binding]; other site 158879006989 active site 158879006990 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 158879006991 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 158879006992 Uncharacterized conserved protein [Function unknown]; Region: COG2128 158879006993 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 158879006994 Protein of unknown function (DUF1433); Region: DUF1433; pfam07252 158879006995 Protein of unknown function (DUF1433); Region: DUF1433; pfam07252 158879006996 Protein of unknown function (DUF1433); Region: DUF1433; pfam07252 158879006997 classical (c) SDRs; Region: SDR_c; cd05233 158879006998 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 158879006999 NAD(P) binding site [chemical binding]; other site 158879007000 active site 158879007001 Domain of unknown function (DUF1413); Region: DUF1413; pfam07205 158879007002 Protein of unknown function, DUF576; Region: DUF576; cl04553 158879007003 Protein of unknown function, DUF576; Region: DUF576; cl04553 158879007004 Protein of unknown function, DUF576; Region: DUF576; cl04553 158879007005 Protein of unknown function, DUF576; Region: DUF576; cl04553 158879007006 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 158879007007 nucleotide binding region [chemical binding]; other site 158879007008 Restriction endonuclease [Defense mechanisms]; Region: COG3587 158879007009 ATP-binding site [chemical binding]; other site 158879007010 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 158879007011 N-terminal putative catalytic domain of uncharacterized prokaryotic and archeal HKD family nucleases fused to a DEAD/DEAH box helicase domain; Region: PLDc_N_DEXD_b2; cd09204 158879007012 PLD-like domain; Region: PLDc_2; pfam13091 158879007013 putative homodimer interface [polypeptide binding]; other site 158879007014 putative active site [active] 158879007015 catalytic site [active] 158879007016 DEAD-like helicases superfamily; Region: DEXDc; smart00487 158879007017 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 158879007018 ATP binding site [chemical binding]; other site 158879007019 putative Mg++ binding site [ion binding]; other site 158879007020 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 158879007021 active site 158879007022 8-oxo-dGMP binding site [chemical binding]; other site 158879007023 nudix motif; other site 158879007024 metal binding site [ion binding]; metal-binding site 158879007025 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 158879007026 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 158879007027 active site 158879007028 substrate binding site [chemical binding]; other site 158879007029 metal binding site [ion binding]; metal-binding site 158879007030 H+ Antiporter protein; Region: 2A0121; TIGR00900 158879007031 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 158879007032 legume lectins; Region: lectin_L-type; cl14058 158879007033 homotetramer interaction site [polypeptide binding]; other site 158879007034 carbohydrate binding site [chemical binding]; other site 158879007035 metal binding site [ion binding]; metal-binding site 158879007036 Helix-turn-helix domains; Region: HTH; cl00088 158879007037 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 158879007038 Helix-turn-helix domains; Region: HTH; cl00088 158879007039 Helix-turn-helix domains; Region: HTH; cl00088 158879007040 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 158879007041 active site 158879007042 tetramer interface; other site 158879007043 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 158879007044 Transposase; Region: DDE_Tnp_ISL3; pfam01610 158879007045 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 158879007046 C-terminus of bacterial fibrinogen-binding adhesin; Region: SdrG_C_C; pfam10425 158879007047 Fibronectin binding repeat; Region: Fn_bind; pfam02986 158879007048 Fibronectin binding repeat; Region: Fn_bind; pfam02986 158879007049 Gram positive anchor; Region: Gram_pos_anchor; cl15427 158879007050 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 158879007051 ribonuclease E; Reviewed; Region: rne; PRK10811 158879007052 C-terminus of bacterial fibrinogen-binding adhesin; Region: SdrG_C_C; pfam10425 158879007053 Fibronectin binding repeat; Region: Fn_bind; pfam02986 158879007054 Fibronectin binding repeat; Region: Fn_bind; pfam02986 158879007055 Gram positive anchor; Region: Gram_pos_anchor; cl15427 158879007056 GntP family permease; Region: GntP_permease; cl15264 158879007057 gluconate transporter; Region: gntP; TIGR00791 158879007058 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 158879007059 gluconate kinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 158879007060 N- and C-terminal domain interface [polypeptide binding]; other site 158879007061 putative active site [active] 158879007062 catalytic site [active] 158879007063 metal binding site [ion binding]; metal-binding site 158879007064 carbohydrate binding site [chemical binding]; other site 158879007065 ATP binding site [chemical binding]; other site 158879007066 Transcriptional regulators [Transcription]; Region: GntR; COG1802 158879007067 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 158879007068 DNA-binding site [nucleotide binding]; DNA binding site 158879007069 FCD domain; Region: FCD; cl11656 158879007070 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 158879007071 DNA binding residues [nucleotide binding] 158879007072 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 158879007073 synthetase active site [active] 158879007074 NTP binding site [chemical binding]; other site 158879007075 metal binding site [ion binding]; metal-binding site 158879007076 Uncharacterized protein conserved in bacteria (DUF2188); Region: DUF2188; cl11557 158879007077 Predicted membrane protein [Function unknown]; Region: COG1289 158879007078 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 158879007079 D-galactonate transporter; Region: 2A0114; TIGR00893 158879007080 putative substrate translocation pore; other site 158879007081 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 158879007082 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 158879007083 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158879007084 Walker A/P-loop; other site 158879007085 ATP binding site [chemical binding]; other site 158879007086 Q-loop/lid; other site 158879007087 ABC transporter signature motif; other site 158879007088 Walker B; other site 158879007089 D-loop; other site 158879007090 H-loop/switch region; other site 158879007091 ABC-2 type transporter; Region: ABC2_membrane; cl11417 158879007092 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 158879007093 Uncharacterized membrane protein [Function unknown]; Region: COG3949 158879007094 Predicted esterase [General function prediction only]; Region: COG0400 158879007095 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 158879007096 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 158879007097 Zn binding site [ion binding]; other site 158879007098 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 158879007099 Zn binding site [ion binding]; other site 158879007100 Helix-turn-helix domains; Region: HTH; cl00088 158879007101 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 158879007102 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 158879007103 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_12; cd07255 158879007104 putative metal binding site [ion binding]; other site 158879007105 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 158879007106 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 158879007107 dimer interface [polypeptide binding]; other site 158879007108 FMN binding site [chemical binding]; other site 158879007109 D-lactate dehydrogenase; Provisional; Region: PRK12480 158879007110 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879007111 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 158879007112 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 158879007113 active site 158879007114 motif I; other site 158879007115 motif II; other site 158879007116 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158879007117 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 158879007118 Walker A/P-loop; other site 158879007119 ATP binding site [chemical binding]; other site 158879007120 Q-loop/lid; other site 158879007121 ABC transporter signature motif; other site 158879007122 Walker B; other site 158879007123 D-loop; other site 158879007124 H-loop/switch region; other site 158879007125 Sortases are cysteine transpeptidases, found in gram-positive bacteria, that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the surface protein substrate is...; Region: Sortase; cd00004 158879007126 active site 158879007127 catalytic site [active] 158879007128 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 158879007129 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 158879007130 Coenzyme A binding pocket [chemical binding]; other site 158879007131 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 158879007132 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 158879007133 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 158879007134 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 158879007135 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 158879007136 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 158879007137 EamA-like transporter family; Region: EamA; cl01037 158879007138 EamA-like transporter family; Region: EamA; cl01037 158879007139 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 158879007140 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 158879007141 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 158879007142 catalytic residues [active] 158879007143 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 158879007144 active site 158879007145 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 158879007146 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 158879007147 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIB_glc; cd00212 158879007148 active site turn [active] 158879007149 phosphorylation site [posttranslational modification] 158879007150 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_glc; cd00210 158879007151 HPr interaction site; other site 158879007152 glycerol kinase (GK) interaction site [polypeptide binding]; other site 158879007153 active site 158879007154 phosphorylation site [posttranslational modification] 158879007155 pyruvate oxidase; Provisional; Region: PRK08611 158879007156 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 158879007157 PYR/PP interface [polypeptide binding]; other site 158879007158 tetramer interface [polypeptide binding]; other site 158879007159 dimer interface [polypeptide binding]; other site 158879007160 TPP binding site [chemical binding]; other site 158879007161 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 158879007162 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX decarboxylates...; Region: TPP_POX; cd02014 158879007163 TPP-binding site [chemical binding]; other site 158879007164 LrgB-like family; Region: LrgB; cl00596 158879007165 LrgA family; Region: LrgA; cl00608 158879007166 Transcriptional regulator [Transcription]; Region: LysR; COG0583 158879007167 Helix-turn-helix domains; Region: HTH; cl00088 158879007168 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 158879007169 putative dimerization interface [polypeptide binding]; other site 158879007170 Protein of unknown function (DUF1250); Region: DUF1250; cl11485 158879007171 NlpC/P60 family; Region: NLPC_P60; cl11438 158879007172 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 158879007173 homodimer interface [polypeptide binding]; other site 158879007174 NAD binding site [chemical binding]; other site 158879007175 catalytic residues [active] 158879007176 substrate binding pocket [chemical binding]; other site 158879007177 flexible flap; other site 158879007178 '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 158879007179 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 158879007180 dimer interface [polypeptide binding]; other site 158879007181 active site 158879007182 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 158879007183 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 158879007184 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 158879007185 DNA binding site [nucleotide binding] 158879007186 active site 158879007187 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 158879007188 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 158879007189 Walker A motif; other site 158879007190 ATP binding site [chemical binding]; other site 158879007191 Walker B motif; other site 158879007192 arginine finger; other site 158879007193 UvrB/uvrC motif; Region: UVR; pfam02151 158879007194 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 158879007195 Walker A motif; other site 158879007196 ATP binding site [chemical binding]; other site 158879007197 Walker B motif; other site 158879007198 arginine finger; other site 158879007199 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 158879007200 Virus attachment protein p12 family; Region: P12; pfam12669 158879007201 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 158879007202 Ferrous iron transport protein B (FeoB) subfamily. E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this...; Region: FeoB; cd01879 158879007203 G1 box; other site 158879007204 GTP/Mg2+ binding site [chemical binding]; other site 158879007205 Switch I region; other site 158879007206 G2 box; other site 158879007207 G3 box; other site 158879007208 Switch II region; other site 158879007209 G4 box; other site 158879007210 G5 box; other site 158879007211 Nucleoside recognition; Region: Gate; cl00486 158879007212 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 158879007213 Nucleoside recognition; Region: Gate; cl00486 158879007214 FeoA domain; Region: FeoA; cl00838 158879007215 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 158879007216 Ammonia monooxygenase; Region: AMO; cl03602 158879007217 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 158879007218 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 158879007219 Delta(1)-pyrroline-5-carboxylate dehydrogenase, RocA; Region: ALDH_PutA-P5CDH-RocA; cd07124 158879007220 Glutamate binding site [chemical binding]; other site 158879007221 homodimer interface [polypeptide binding]; other site 158879007222 NAD binding site [chemical binding]; other site 158879007223 catalytic residues [active] 158879007224 maltose O-acetyltransferase; Provisional; Region: PRK10092 158879007225 Maltose O-acetyltransferase (MAT) and Galactoside O-acetyltransferase (GAT): MAT and GAT catalyze the CoA-dependent acetylation of the 6-hydroxyl group of their respective sugar substrates. MAT acetylates maltose and glucose exclusively at the C6...; Region: LbH_MAT_GAT; cd03357 158879007226 active site 158879007227 substrate binding site [chemical binding]; other site 158879007228 trimer interface [polypeptide binding]; other site 158879007229 CoA binding site [chemical binding]; other site 158879007230 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 158879007231 metal-binding site [ion binding] 158879007232 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 158879007233 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 158879007234 metal-binding site [ion binding] 158879007235 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 158879007236 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 158879007237 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 158879007238 metal-binding site [ion binding] 158879007239 D-lactate dehydrogenase; Validated; Region: PRK08605 158879007240 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879007241 transaminase; Reviewed; Region: PRK08068 158879007242 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 158879007243 pyridoxal 5'-phosphate binding site [chemical binding]; other site 158879007244 homodimer interface [polypeptide binding]; other site 158879007245 catalytic residue [active] 158879007246 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 158879007247 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879007248 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 158879007249 active site lid residues [active] 158879007250 substrate binding pocket [chemical binding]; other site 158879007251 catalytic residues [active] 158879007252 substrate-Mg2+ binding site; other site 158879007253 aspartate-rich region 1; other site 158879007254 aspartate-rich region 2; other site 158879007255 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 158879007256 active site 158879007257 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 158879007258 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879007259 NlpC/P60 family; Region: NLPC_P60; cl11438 158879007260 OpgC protein; Region: OpgC_C; cl00792 158879007261 Acyltransferase family; Region: Acyl_transf_3; pfam01757 158879007262 yrhL-like subfamily of SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_yrhL_like; cd01840 158879007263 catalytic triad [active] 158879007264 catalytic triad [active] 158879007265 oxyanion hole [active] 158879007266 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 158879007267 Coenzyme A binding pocket [chemical binding]; other site 158879007268 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 158879007269 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 158879007270 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 158879007271 Helix-turn-helix domains; Region: HTH; cl00088 158879007272 Bacterial protein of unknown function (DUF896); Region: DUF896; cl01722 158879007273 Protein of unknown function (DUF3125); Region: DUF3125; pfam11323 158879007274 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_24; cd09012 158879007275 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 158879007276 NmrA (a transcriptional regulator) and HSCARG (an NADPH sensor) like proteins, atypical (a) SDRs; Region: NmrA_like_SDR_a; cd05251 158879007277 NmrA-like family; Region: NmrA; pfam05368 158879007278 NADP binding site [chemical binding]; other site 158879007279 active site 158879007280 regulatory binding site [polypeptide binding]; other site 158879007281 Uncharacterized protein conserved in bacteria (DUF2316); Region: DUF2316; cl01805 158879007282 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 158879007283 Helix-turn-helix domains; Region: HTH; cl00088 158879007284 acetoacetyl-CoA reductase; Provisional; Region: PRK12824 158879007285 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879007286 NAD(P) binding site [chemical binding]; other site 158879007287 active site 158879007288 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 158879007289 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 158879007290 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 158879007291 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158879007292 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 158879007293 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 158879007294 Nucleoside recognition; Region: Gate; cl00486 158879007295 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 158879007296 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4495 158879007297 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK family is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: APH_ChoK_like; cl15691 158879007298 Phosphotransferase enzyme family; Region: APH; pfam01636 158879007299 active site 158879007300 substrate binding site [chemical binding]; other site 158879007301 ATP binding site [chemical binding]; other site 158879007302 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 158879007303 quinone interaction residues [chemical binding]; other site 158879007304 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 158879007305 active site 158879007306 catalytic residues [active] 158879007307 FMN binding site [chemical binding]; other site 158879007308 substrate binding site [chemical binding]; other site 158879007309 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 158879007310 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 158879007311 dimer interface [polypeptide binding]; other site 158879007312 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 158879007313 Helix-turn-helix domains; Region: HTH; cl00088 158879007314 Predicted acyl esterases [General function prediction only]; Region: COG2936 158879007315 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 158879007316 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 158879007317 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 158879007318 S-adenosylmethionine binding site [chemical binding]; other site 158879007319 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 158879007320 S-adenosylmethionine binding site [chemical binding]; other site 158879007321 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 158879007322 active site 158879007323 NTP binding site [chemical binding]; other site 158879007324 metal binding triad [ion binding]; metal-binding site 158879007325 antibiotic binding site [chemical binding]; other site 158879007326 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 158879007327 Tn544B and related transposases, DNA breaking-rejoining enzymes, integrase/recombinases, catalytic domain. This CD includes various bacterial transposases similar to TnpB from transposon Tn554; Region: INT_Tn544B_C; cd01195 158879007328 Phage integrase family; Region: Phage_integrase; pfam00589 158879007329 Int/Topo IB signature motif; other site 158879007330 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 158879007331 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 158879007332 Tn544A and related transposases, DNA breaking-rejoining enzymes, integrase/recombinases, C-terminal catalytic domain. This CD includes various bacterial transposases similar to TnpA from transposon Tn554; Region: INT_Tn554A_C; cd01194 158879007333 Int/Topo IB signature motif; other site 158879007334 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 158879007335 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 158879007336 tetramerization interface [polypeptide binding]; other site 158879007337 active site 158879007338 pantoate--beta-alanine ligase; Reviewed; Region: panC; PRK00380 158879007339 Pantoate-beta-alanine ligase; Region: PanC; cd00560 158879007340 active site 158879007341 ATP-binding site [chemical binding]; other site 158879007342 pantoate-binding site; other site 158879007343 HXXH motif; other site 158879007344 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 158879007345 oligomerization interface [polypeptide binding]; other site 158879007346 active site 158879007347 metal binding site [ion binding]; metal-binding site 158879007348 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 158879007349 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879007350 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 158879007351 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; cl01408 158879007352 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 158879007353 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 158879007354 tetramer (dimer of dimers) interface [polypeptide binding]; other site 158879007355 NAD binding site [chemical binding]; other site 158879007356 dimer interface [polypeptide binding]; other site 158879007357 substrate binding site [chemical binding]; other site 158879007358 amino acid transporter; Region: 2A0306; TIGR00909 158879007359 Spore germination protein; Region: Spore_permease; cl15802 158879007360 Spore germination protein; Region: Spore_permease; cl15802 158879007361 4-aminobutyrate aminotransferase; Provisional; Region: PRK08593 158879007362 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 158879007363 inhibitor-cofactor binding pocket; inhibition site 158879007364 pyridoxal 5'-phosphate binding site [chemical binding]; other site 158879007365 catalytic residue [active] 158879007366 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 158879007367 catalytic residue [active] 158879007368 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879007369 Predicted dehydrogenase [General function prediction only]; Region: COG0579 158879007370 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 158879007371 Acyl-protein synthetase, LuxE; Region: LuxE; cl15695 158879007372 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 158879007373 Protein of unknown function (DUF1250); Region: DUF1250; cl11485 158879007374 choline dehydrogenase; Validated; Region: PRK02106 158879007375 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 158879007376 Bacillus subtilis NAD+-dependent betaine aldehyde dehydrogenase-like; Region: ALDH_BADH-GbsA; cd07119 158879007377 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 158879007378 tetramerization interface [polypeptide binding]; other site 158879007379 NAD(P) binding site [chemical binding]; other site 158879007380 catalytic residues [active] 158879007381 Predicted transcriptional regulators [Transcription]; Region: COG1510 158879007382 BCCT family transporter; Region: BCCT; cl00569 158879007383 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG; TIGR02491 158879007384 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 158879007385 FeS/SAM binding site; other site 158879007386 anaerobic ribonucleoside-triphosphate reductase; Region: NrdD; TIGR02487 158879007387 Class III ribonucleotide reductase; Region: RNR_III; cd01675 158879007388 effector binding site; other site 158879007389 active site 158879007390 Zn binding site [ion binding]; other site 158879007391 glycine loop; other site 158879007392 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 158879007393 Citrate transporter; Region: CitMHS; pfam03600 158879007394 precorrin-2 dehydrogenase; Reviewed; Region: PRK06718 158879007395 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879007396 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 158879007397 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 158879007398 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR; cd06199 158879007399 FAD binding pocket [chemical binding]; other site 158879007400 FAD binding motif [chemical binding]; other site 158879007401 catalytic residues [active] 158879007402 NAD binding pocket [chemical binding]; other site 158879007403 phosphate binding motif [ion binding]; other site 158879007404 beta-alpha-beta structure motif; other site 158879007405 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 158879007406 catalytic residues [active] 158879007407 dimer interface [polypeptide binding]; other site 158879007408 FtsX-like permease family; Region: FtsX; pfam02687 158879007409 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 158879007410 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 158879007411 Walker A/P-loop; other site 158879007412 ATP binding site [chemical binding]; other site 158879007413 Q-loop/lid; other site 158879007414 ABC transporter signature motif; other site 158879007415 Walker B; other site 158879007416 D-loop; other site 158879007417 H-loop/switch region; other site 158879007418 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 158879007419 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 158879007420 ATP binding site [chemical binding]; other site 158879007421 Mg2+ binding site [ion binding]; other site 158879007422 G-X-G motif; other site 158879007423 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 158879007424 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cd00156 158879007425 active site 158879007426 phosphorylation site [posttranslational modification] 158879007427 intermolecular recognition site; other site 158879007428 dimerization interface [polypeptide binding]; other site 158879007429 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 158879007430 DNA binding site [nucleotide binding] 158879007431 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 158879007432 dimer interface [polypeptide binding]; other site 158879007433 Alkaline phosphatase homologues; Region: alkPPc; smart00098 158879007434 active site 158879007435 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; cl12039 158879007436 Helix-turn-helix domains; Region: HTH; cl00088 158879007437 Predicted esterase [General function prediction only]; Region: COG0627 158879007438 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 158879007439 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 158879007440 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 158879007441 C-terminus of bacterial fibrinogen-binding adhesin; Region: SdrG_C_C; pfam10425 158879007442 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 158879007443 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; cl00047 158879007444 Helix-turn-helix domains; Region: HTH; cl00088 158879007445 carbamate kinase; Reviewed; Region: PRK12686 158879007446 AAK_CK: Carbamate kinase (CK) catalyzes both the ATP-phosphorylation of carbamate and carbamoyl phosphate (CP) utilization with the production of ATP from ADP and CP. Both CK (this CD) and nonhomologous CP synthetase synthesize carbamoyl phosphate, an...; Region: AAK_CK; cd04235 158879007447 putative substrate binding site [chemical binding]; other site 158879007448 nucleotide binding site [chemical binding]; other site 158879007449 nucleotide binding site [chemical binding]; other site 158879007450 homodimer interface [polypeptide binding]; other site 158879007451 Amino acid permease; Region: AA_permease; cl00524 158879007452 ornithine carbamoyltransferase; Validated; Region: PRK02102 158879007453 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 158879007454 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 158879007455 Amidinotransferase; Region: Amidinotransf; cl12043 158879007456 Arginine repressor [Transcription]; Region: ArgR; COG1438 158879007457 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 158879007458 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 158879007459 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 158879007460 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 158879007461 Peptidase propeptide and YPEB domain; Region: PepSY; cl15480 158879007462 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 158879007463 active site 158879007464 Zn binding site [ion binding]; other site 158879007465 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 158879007466 Helix-turn-helix domains; Region: HTH; cl00088 158879007467 PRD domain; Region: PRD; cl15445 158879007468 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 158879007469 P-loop; other site 158879007470 active site 158879007471 phosphorylation site [posttranslational modification] 158879007472 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 158879007473 active site 158879007474 phosphorylation site [posttranslational modification] 158879007475 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 158879007476 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 158879007477 P-loop; other site 158879007478 active site 158879007479 phosphorylation site [posttranslational modification] 158879007480 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 158879007481 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 158879007482 active site 158879007483 phosphorylation site [posttranslational modification] 158879007484 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 158879007485 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 158879007486 Predicted membrane protein [Function unknown]; Region: COG1511 158879007487 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 158879007488 ABC-2 type transporter; Region: ABC2_membrane; cl11417 158879007489 N-acetylmuramoyl-L-alanine amidase; Validated; Region: PRK08581 158879007490 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; cl00743 158879007491 NlpC/P60 family; Region: NLPC_P60; cl11438 158879007492 Isochorismatase family; Region: Isochorismatase; pfam00857 158879007493 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 158879007494 catalytic triad [active] 158879007495 conserved cis-peptide bond; other site 158879007496 accessory Sec system glycosyltransferase GtfB; Region: TIGR02919 158879007497 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 158879007498 accessory Sec system glycosylation protein GtfA; Region: TIGR02918 158879007499 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 158879007500 This family is most closely related to the GT1 family of glycosyltransferases and is named after gtfA in Streptococcus gordonii, where it plays a role in the O-linked glycosylation of GspB, a cell surface glycoprotein involved in platelet binding. In...; Region: GT1_gtfA_like; cd04949 158879007501 accessory Sec system translocase SecA2; Region: secA2; TIGR03714 158879007502 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158879007503 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 158879007504 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 158879007505 nucleotide binding region [chemical binding]; other site 158879007506 ATP-binding site [chemical binding]; other site 158879007507 accessory Sec system protein Asp3; Region: acc_sec_asp3; TIGR03711 158879007508 accessory Sec system protein Asp2; Region: acc_sec_asp2; TIGR03712 158879007509 accessory Sec system protein Asp1; Region: acc_sec_asp1; TIGR03713 158879007510 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 158879007511 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK12417 158879007512 SecY translocase; Region: SecY; pfam00344 158879007513 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 158879007514 legume lectins; Region: lectin_L-type; cd01951 158879007515 homotetramer interaction site [polypeptide binding]; other site 158879007516 carbohydrate binding site [chemical binding]; other site 158879007517 metal binding site [ion binding]; metal-binding site 158879007518 Cadherin repeat-like domain; Region: CA_like; cl15786 158879007519 Flavin Reductases; Region: FlaRed; cl00801 158879007520 Flavin Reductases; Region: FlaRed; cl00801 158879007521 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 158879007522 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 158879007523 Coenzyme A binding pocket [chemical binding]; other site 158879007524 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 158879007525 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 158879007526 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 158879007527 Chain length determinant protein; Region: Wzz; cl01623 158879007528 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 158879007529 Helix-turn-helix domains; Region: HTH; cl00088 158879007530 poly-beta-1,6 N-acetyl-D-glucosamine synthase; Region: PgaC_IcaA; TIGR03937 158879007531 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 158879007532 DXD motif; other site 158879007533 intracellular adhesion protein D; Region: PIA_icaD; TIGR03932 158879007534 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 158879007535 OpgC protein; Region: OpgC_C; cl00792 158879007536 Protein of unknown function (DUF3125); Region: DUF3125; pfam11323 158879007537 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 158879007538 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 158879007539 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 158879007540 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 158879007541 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 158879007542 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 158879007543 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 158879007544 substrate binding site [chemical binding]; other site 158879007545 glutamase interaction surface [polypeptide binding]; other site 158879007546 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 158879007547 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 158879007548 catalytic residues [active] 158879007549 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13142 158879007550 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 158879007551 putative active site [active] 158879007552 oxyanion strand; other site 158879007553 catalytic triad [active] 158879007554 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 158879007555 putative active site pocket [active] 158879007556 4-fold oligomerization interface [polypeptide binding]; other site 158879007557 metal binding residues [ion binding]; metal-binding site 158879007558 3-fold/trimer interface [polypeptide binding]; other site 158879007559 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 158879007560 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 158879007561 pyridoxal 5'-phosphate binding site [chemical binding]; other site 158879007562 homodimer interface [polypeptide binding]; other site 158879007563 catalytic residue [active] 158879007564 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 158879007565 histidinol dehydrogenase; Region: hisD; TIGR00069 158879007566 NAD binding site [chemical binding]; other site 158879007567 dimerization interface [polypeptide binding]; other site 158879007568 product binding site; other site 158879007569 substrate binding site [chemical binding]; other site 158879007570 zinc binding site [ion binding]; other site 158879007571 catalytic residues [active] 158879007572 ATP phosphoribosyltransferase; Region: HisG; cl15266 158879007573 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 158879007574 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 158879007575 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 158879007576 putative active site [active] 158879007577 putative metal binding site [ion binding]; other site 158879007578 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 158879007579 Cobalt transport protein; Region: CbiQ; cl00463 158879007580 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 158879007581 Walker A/P-loop; other site 158879007582 ATP binding site [chemical binding]; other site 158879007583 Q-loop/lid; other site 158879007584 ABC transporter signature motif; other site 158879007585 Walker B; other site 158879007586 D-loop; other site 158879007587 H-loop/switch region; other site 158879007588 ATP-binding cassette cobalt transporter; Region: DUF3744; pfam12558 158879007589 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 158879007590 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 158879007591 Walker A/P-loop; other site 158879007592 ATP binding site [chemical binding]; other site 158879007593 Q-loop/lid; other site 158879007594 ABC transporter signature motif; other site 158879007595 Walker B; other site 158879007596 D-loop; other site 158879007597 H-loop/switch region; other site 158879007598 Protein of unknown function (DUF1393); Region: DUF1393; cl01942 158879007599 Uncharacterized conserved protein [Function unknown]; Region: COG1912 158879007600 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 158879007601 YceI-like domain; Region: YceI; cl01001 158879007602 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 158879007603 Strictosidine synthase; Region: Str_synth; pfam03088 158879007604 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 158879007605 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 158879007606 active site residue [active] 158879007607 Protein of unknown function (DUF3650); Region: DUF3650; pfam12368 158879007608 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 158879007609 putative substrate binding pocket [chemical binding]; other site 158879007610 AC domain interface; other site 158879007611 catalytic triad [active] 158879007612 AB domain interface; other site 158879007613 interchain disulfide; other site 158879007614 hypothetical protein; Validated; Region: PRK07668 158879007615 Helix-turn-helix domains; Region: HTH; cl00088 158879007616 DinB superfamily; Region: DinB_2; cl00986 158879007617 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 158879007618 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; cd00625 158879007619 transmembrane helices; other site 158879007620 Predicted permeases [General function prediction only]; Region: RarD; COG2962 158879007621 EamA-like transporter family; Region: EamA; cl01037 158879007622 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 158879007623 High-affinity nickel-transport protein; Region: NicO; cl00964 158879007624 N-acetyltransferase; Region: Acetyltransf_2; cl00949 158879007625 Uncharacterized conserved protein [Function unknown]; Region: HdeD; cl01277 158879007626 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 158879007627 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 158879007628 Walker A/P-loop; other site 158879007629 ATP binding site [chemical binding]; other site 158879007630 Q-loop/lid; other site 158879007631 ABC transporter signature motif; other site 158879007632 Walker B; other site 158879007633 D-loop; other site 158879007634 H-loop/switch region; other site 158879007635 FtsX-like permease family; Region: FtsX; pfam02687 158879007636 Cold-Shock Protein (CSP) contains an S1-like cold-shock domain (CSD) that is found in eukaryotes, prokaryotes, and archaea. CSP's include the major cold-shock proteins CspA and CspB in bacteria and the eukaryotic gene regulatory factor Y-box protein; Region: CSP_CDS; cd04458 158879007637 DNA-binding site [nucleotide binding]; DNA binding site 158879007638 RNA-binding motif; other site 158879007639 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 158879007640 non-specific DNA binding site [nucleotide binding]; other site 158879007641 salt bridge; other site 158879007642 sequence-specific DNA binding site [nucleotide binding]; other site 158879007643 Protein of unknown function (DUF3147); Region: DUF3147; pfam11345 158879007644 Protein of unknown function (DUF3147); Region: DUF3147; pfam11345 158879007645 Protein of unknown function (DUF3125); Region: DUF3125; pfam11323 158879007646 ParB-like nuclease domain; Region: ParBc; cl02129 158879007647 ParB-like partition proteins; Region: parB_part; TIGR00180 158879007648 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 158879007649 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl12011 158879007650 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 158879007651 tRNA (uracil-5-)-methyltransferase Gid; Reviewed; Region: PRK05335; cl15440 158879007652 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 158879007653 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 158879007654 TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes. It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase...; Region: trmE; cd04164 158879007655 G1 box; other site 158879007656 GTP/Mg2+ binding site [chemical binding]; other site 158879007657 Switch I region; other site 158879007658 G2 box; other site 158879007659 Switch II region; other site 158879007660 G3 box; other site 158879007661 G4 box; other site 158879007662 G5 box; other site 158879007663 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 158879007664 Ribonuclease P; Region: Ribonuclease_P; cl00457 158879007665 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 158879007666 Helix-turn-helix domains; Region: HTH; cl00088 158879007667 Replication protein; Region: Rep_1; cl02412 158879007668 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 158879007669 Cadmium resistance transporter; Region: Cad; cl04177 158879007670 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 158879007671 putative DNA binding site [nucleotide binding]; other site 158879007672 putative Zn2+ binding site [ion binding]; other site 158879007673 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 158879007674 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 158879007675 NADP binding site [chemical binding]; other site 158879007676 dimer interface [polypeptide binding]; other site 158879007677 Transcriptional regulators [Transcription]; Region: MarR; COG1846 158879007678 Helix-turn-helix domains; Region: HTH; cl00088 158879007679 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 158879007680 beta-lactamase TEM; Provisional; Region: PRK15442 158879007681 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 158879007682 BlaR1 peptidase M56; Region: Peptidase_M56; cl15829 158879007683 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 158879007684 Helix-turn-helix domains; Region: HTH; cl00088 158879007685 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 158879007686 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 158879007687 catalytic residues [active] 158879007688 catalytic nucleophile [active] 158879007689 Presynaptic Site I dimer interface [polypeptide binding]; other site 158879007690 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 158879007691 Synaptic Flat tetramer interface [polypeptide binding]; other site 158879007692 Synaptic Site I dimer interface [polypeptide binding]; other site 158879007693 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 158879007694 DNA-binding interface [nucleotide binding]; DNA binding site 158879007695 Integrase core domain; Region: rve; cl01316 158879007696 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 158879007697 Uncharacterized ATPase, putative transposase [General function prediction only]; Region: COG2842 158879007698 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 158879007699 Presynaptic Site I dimer interface [polypeptide binding]; other site 158879007700 catalytic residues [active] 158879007701 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 158879007702 Synaptic Flat tetramer interface [polypeptide binding]; other site 158879007703 Synaptic Site I dimer interface [polypeptide binding]; other site 158879007704 DNA binding site [nucleotide binding] 158879007705 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 158879007706 DNA-binding interface [nucleotide binding]; DNA binding site 158879007707 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 158879007708 dimerization interface [polypeptide binding]; other site 158879007709 putative DNA binding site [nucleotide binding]; other site 158879007710 putative Zn2+ binding site [ion binding]; other site 158879007711 arsenical pump membrane protein; Provisional; Region: PRK15445 158879007712 Anion permease ArsB. These permeases have been shown to export arsenate and antimonite in eubacteria and archaea. A typical ArsB permease contains 8-13 transmembrane helices and can function either independently as a chemiosmotic transporter or as a...; Region: ArsB_permease; cd01118 158879007713 transmembrane helices; other site 158879007714 Low molecular weight phosphatase family; Region: LMWPc; cd00115 158879007715 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 158879007716 active site 158879007717 Bacteriocin (Lactococcin_972); Region: Lactococcin_972; cl09891 158879007718 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4652 158879007719 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 158879007720 Protein of unknown function (DUF1093); Region: DUF1093; cl02185 158879007721 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 158879007722 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 158879007723 Walker A/P-loop; other site 158879007724 ATP binding site [chemical binding]; other site 158879007725 Q-loop/lid; other site 158879007726 ABC transporter signature motif; other site 158879007727 Walker B; other site 158879007728 D-loop; other site 158879007729 H-loop/switch region; other site 158879007730 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 158879007731 Plasmid recombination enzyme; Region: Mob_Pre; pfam01076 158879007732 Initiator Replication protein; Region: Rep_3; cl03080 158879007733 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 158879007734 non-specific DNA binding site [nucleotide binding]; other site 158879007735 salt bridge; other site 158879007736 sequence-specific DNA binding site [nucleotide binding]; other site