-- dump date 20120504_162146 -- class Genbank::misc_feature -- table misc_feature_note -- id note 359787000001 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 359787000002 putative DNA binding site [nucleotide binding]; other site 359787000003 putative Zn2+ binding site [ion binding]; other site 359787000004 Predicted permease, cadmium resistance protein [Inorganic ion transport and metabolism]; Region: CadD; COG4300 359787000005 Cadmium resistance transporter; Region: Cad; cl04177 359787000006 Helix-turn-helix domains; Region: HTH; cl00088 359787000007 DNA topoisomerase II; Provisional; Region: PTZ00108 359787000008 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 359787000009 Integrase core domain; Region: rve; cl01316 359787000010 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 359787000011 Coenzyme A binding pocket [chemical binding]; other site 359787000012 Predicted acetyltransferase [General function prediction only]; Region: COG3393 359787000013 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 359787000014 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 359787000015 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 359787000016 Phosphotransferase enzyme family; Region: APH; pfam01636 359787000017 active site 359787000018 ATP binding site [chemical binding]; other site 359787000019 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 359787000020 active site 359787000021 ATP binding site [chemical binding]; other site 359787000022 substrate binding site [chemical binding]; other site 359787000023 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 359787000024 Integrase core domain; Region: rve; cl01316 359787000025 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 359787000026 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 359787000027 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 359787000028 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787000029 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 359787000030 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 359787000031 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 359787000032 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 359787000033 active site 359787000034 dimer interface [polypeptide binding]; other site 359787000035 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 359787000036 dimer interface [polypeptide binding]; other site 359787000037 active site 359787000038 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 359787000039 active site 359787000040 dimer interface [polypeptide binding]; other site 359787000041 magnesium binding site [ion binding]; other site 359787000042 Predicted sugar phosphate isomerase involved in capsule formation [Cell envelope biogenesis, outer membrane]; Region: GutQ; COG0794 359787000043 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 359787000044 tetramer interface [polypeptide binding]; other site 359787000045 active site 359787000046 Helix-turn-helix domains; Region: HTH; cl00088 359787000047 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 359787000048 Integrase core domain; Region: rve; cl01316 359787000049 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 359787000050 Integrase core domain; Region: rve; cl01316 359787000051 Predicted membrane protein [Function unknown]; Region: COG4640 359787000052 YolD-like protein; Region: YolD; pfam08863 359787000053 Uncharacterized ATPase, putative transposase [General function prediction only]; Region: COG2842 359787000054 Helix-turn-helix domains; Region: HTH; cl00088 359787000055 Integrase core domain; Region: rve; cl01316 359787000056 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 359787000057 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 359787000058 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 359787000059 catalytic residues [active] 359787000060 catalytic nucleophile [active] 359787000061 Presynaptic Site I dimer interface [polypeptide binding]; other site 359787000062 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 359787000063 Synaptic Flat tetramer interface [polypeptide binding]; other site 359787000064 Synaptic Site I dimer interface [polypeptide binding]; other site 359787000065 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 359787000066 DNA-binding interface [nucleotide binding]; DNA binding site 359787000067 Helix-turn-helix domains; Region: HTH; cl00088 359787000068 BlaR1 peptidase M56; Region: Peptidase_M56; cl15829 359787000069 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 359787000070 BlaR1 peptidase M56; Region: Peptidase_M56; cl15829 359787000071 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 359787000072 beta-lactamase TEM; Provisional; Region: PRK15442 359787000073 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 359787000074 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 359787000075 Helix-turn-helix domains; Region: HTH; cl00088 359787000076 Yhdh and yhfp-like putative quinone oxidoreductases; Region: MDR_yhdh_yhfp; cd05280 359787000077 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 359787000078 NADP binding site [chemical binding]; other site 359787000079 dimer interface [polypeptide binding]; other site 359787000080 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 359787000081 DnaA N-terminal domain; Region: DnaA_N; pfam11638 359787000082 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 359787000083 Walker A motif; other site 359787000084 ATP binding site [chemical binding]; other site 359787000085 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 359787000086 Walker B motif; other site 359787000087 arginine finger; other site 359787000088 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 359787000089 DnaA box-binding interface [nucleotide binding]; other site 359787000090 DNA polymerase III subunit beta; Validated; Region: PRK05643 359787000091 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 359787000092 putative DNA binding surface [nucleotide binding]; other site 359787000093 dimer interface [polypeptide binding]; other site 359787000094 beta-clamp/clamp loader binding surface; other site 359787000095 beta-clamp/translesion DNA polymerase binding surface; other site 359787000096 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 359787000097 recF protein; Region: recf; TIGR00611 359787000098 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 359787000099 Walker A/P-loop; other site 359787000100 ATP binding site [chemical binding]; other site 359787000101 Q-loop/lid; other site 359787000102 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 359787000103 ABC transporter signature motif; other site 359787000104 Walker B; other site 359787000105 D-loop; other site 359787000106 H-loop/switch region; other site 359787000107 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 359787000108 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 359787000109 Mg2+ binding site [ion binding]; other site 359787000110 G-X-G motif; other site 359787000111 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 359787000112 anchoring element; other site 359787000113 dimer interface [polypeptide binding]; other site 359787000114 ATP binding site [chemical binding]; other site 359787000115 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 359787000116 active site 359787000117 putative metal-binding site [ion binding]; other site 359787000118 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 359787000119 DNA gyrase subunit A; Validated; Region: PRK05560 359787000120 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 359787000121 CAP-like domain; other site 359787000122 active site 359787000123 primary dimer interface [polypeptide binding]; other site 359787000124 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 359787000125 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 359787000126 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 359787000127 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 359787000128 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 359787000129 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 359787000130 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 359787000131 putative substrate binding site [chemical binding]; other site 359787000132 putative ATP binding site [chemical binding]; other site 359787000133 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 359787000134 active sites [active] 359787000135 tetramer interface [polypeptide binding]; other site 359787000136 seryl-tRNA synthetase; Provisional; Region: PRK05431 359787000137 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 359787000138 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 359787000139 dimer interface [polypeptide binding]; other site 359787000140 active site 359787000141 motif 1; other site 359787000142 motif 2; other site 359787000143 motif 3; other site 359787000144 AzlC protein; Region: AzlC; cl00570 359787000145 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 359787000146 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 359787000147 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 359787000148 Predicted membrane protein (DUF2232); Region: DUF2232; cl01728 359787000149 Predicted signaling protein consisting of a modified GGDEF domain and a DHH domain [Signal transduction mechanisms]; Region: COG3887 359787000150 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 359787000151 DHH family; Region: DHH; pfam01368 359787000152 DHHA1 domain; Region: DHHA1; pfam02272 359787000153 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 359787000154 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 359787000155 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 359787000156 replicative DNA helicase; Region: DnaB; TIGR00665 359787000157 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 359787000158 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 359787000159 Walker A motif; other site 359787000160 ATP binding site [chemical binding]; other site 359787000161 Walker B motif; other site 359787000162 DNA binding loops [nucleotide binding] 359787000163 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 359787000164 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 359787000165 GDP-binding site [chemical binding]; other site 359787000166 ACT binding site; other site 359787000167 IMP binding site; other site 359787000168 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 359787000169 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 359787000170 active site 359787000171 phosphorylation site [posttranslational modification] 359787000172 intermolecular recognition site; other site 359787000173 dimerization interface [polypeptide binding]; other site 359787000174 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 359787000175 DNA binding site [nucleotide binding] 359787000176 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: VicK; COG5002 359787000177 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 359787000178 dimerization interface [polypeptide binding]; other site 359787000179 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 359787000180 putative active site [active] 359787000181 heme pocket [chemical binding]; other site 359787000182 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 359787000183 dimer interface [polypeptide binding]; other site 359787000184 phosphorylation site [posttranslational modification] 359787000185 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 359787000186 ATP binding site [chemical binding]; other site 359787000187 Mg2+ binding site [ion binding]; other site 359787000188 G-X-G motif; other site 359787000189 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4863 359787000190 YycH protein; Region: YycH; pfam07435 359787000191 YycH protein; Region: YycI; cl02015 359787000192 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 359787000193 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 359787000194 Staphylococcus aureus SA0022 and related proteins, N-terminal metallophosphatase domain; Region: MPP_SA0022_N; cd07408 359787000195 putative active site [active] 359787000196 putative metal binding site [ion binding]; other site 359787000197 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 359787000198 Gram positive anchor; Region: Gram_pos_anchor; cl15427 359787000199 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 359787000200 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 359787000201 Domain of unknown function (DUF3578); Region: DUF3578; pfam12102 359787000202 Domain of unknown function (DUF3883); Region: DUF3883; pfam13020 359787000203 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 359787000204 Integrase core domain; Region: rve; cl01316 359787000205 Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins; Region: GDPD_EcUgpQ_like; cd08562 359787000206 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 359787000207 putative active site [active] 359787000208 catalytic site [active] 359787000209 putative metal binding site [ion binding]; other site 359787000210 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 359787000211 putative active site [active] 359787000212 putative catalytic site [active] 359787000213 NTF2-like N-terminal transpeptidase domain; Region: MecA_N; pfam05223 359787000214 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 359787000215 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 359787000216 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 359787000217 BlaR1 peptidase M56; Region: Peptidase_M56; cl15829 359787000218 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 359787000219 Helix-turn-helix domains; Region: HTH; cl00088 359787000220 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 359787000221 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 359787000222 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 359787000223 active site residue [active] 359787000224 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 359787000225 CPxP motif; other site 359787000226 DsrE/DsrF-like family; Region: DrsE; cl00672 359787000227 Uncharacterized protein YrkD from Bacillus subtilis and related domains; this domain superfamily was previously known as part of DUF156; Region: BsYrkD-like_DUF156; cd10155 359787000228 putative homotetramer interface [polypeptide binding]; other site 359787000229 putative homodimer interface [polypeptide binding]; other site 359787000230 putative metal binding site [ion binding]; other site 359787000231 putative homodimer-homodimer interface [polypeptide binding]; other site 359787000232 putative allosteric switch controlling residues; other site 359787000233 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 359787000234 S-adenosylmethionine binding site [chemical binding]; other site 359787000235 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 359787000236 S-adenosylmethionine binding site [chemical binding]; other site 359787000237 aminoglycoside resistance protein; Provisional; Region: PRK13746 359787000238 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 359787000239 active site 359787000240 NTP binding site [chemical binding]; other site 359787000241 metal binding triad [ion binding]; metal-binding site 359787000242 antibiotic binding site [chemical binding]; other site 359787000243 Domain of unknown function (DUF4111); Region: DUF4111; pfam13427 359787000244 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 359787000245 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 359787000246 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 359787000247 Int/Topo IB signature motif; other site 359787000248 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 359787000249 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 359787000250 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 359787000251 Int/Topo IB signature motif; other site 359787000252 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 359787000253 MPN+ (JAMM) motif; other site 359787000254 Zinc-binding site [ion binding]; other site 359787000255 Protein of unknown function (DUF1643); Region: DUF1643; cl01787 359787000256 Staphylococcal protein of unknown function (DUF960); Region: DUF960; pfam06124 359787000257 Staphylococcus protein of unknown function (DUF950); Region: DUF950; pfam06106 359787000258 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 359787000259 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 359787000260 catalytic residues [active] 359787000261 catalytic nucleophile [active] 359787000262 Presynaptic Site I dimer interface [polypeptide binding]; other site 359787000263 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 359787000264 Synaptic Flat tetramer interface [polypeptide binding]; other site 359787000265 Synaptic Site I dimer interface [polypeptide binding]; other site 359787000266 DNA binding site [nucleotide binding] 359787000267 Recombinase; Region: Recombinase; pfam07508 359787000268 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 359787000269 Ogr/Delta-like zinc finger; Region: Ogr_Delta; pfam04606 359787000270 Transcription factor/nuclear export subunit protein 2; Region: Tho2; pfam11262 359787000271 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 359787000272 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 359787000273 catalytic residues [active] 359787000274 catalytic nucleophile [active] 359787000275 Recombinase; Region: Recombinase; pfam07508 359787000276 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 359787000277 Domain of unknown function (DUF927); Region: DUF927; cl12098 359787000278 Domain of unknown function (DUF1413); Region: DUF1413; pfam07205 359787000279 Integrase core domain; Region: rve; cl01316 359787000280 Integrase core domain; Region: rve_3; cl15866 359787000281 HTH-like domain; Region: HTH_21; pfam13276 359787000282 Helix-turn-helix domains; Region: HTH; cl00088 359787000283 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 359787000284 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 359787000285 active site 359787000286 phosphorylation site [posttranslational modification] 359787000287 intermolecular recognition site; other site 359787000288 dimerization interface [polypeptide binding]; other site 359787000289 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 359787000290 DNA binding site [nucleotide binding] 359787000291 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 359787000292 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 359787000293 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 359787000294 Ligand Binding Site [chemical binding]; other site 359787000295 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 359787000296 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 359787000297 dimer interface [polypeptide binding]; other site 359787000298 phosphorylation site [posttranslational modification] 359787000299 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 359787000300 ATP binding site [chemical binding]; other site 359787000301 Mg2+ binding site [ion binding]; other site 359787000302 G-X-G motif; other site 359787000303 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 359787000304 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 359787000305 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 359787000306 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 359787000307 K+-transporting ATPase, c chain; Region: KdpC; cl00944 359787000308 Domain of unknown function (DUF927); Region: DUF927; cl12098 359787000309 Protein kinase domain; Region: Pkinase; pfam00069 359787000310 Catalytic domain of Protein Kinases; Region: PKc; cd00180 359787000311 active site 359787000312 ATP binding site [chemical binding]; other site 359787000313 substrate binding site [chemical binding]; other site 359787000314 activation loop (A-loop); other site 359787000315 sporadically distributed protein, TIGR04141 family; Region: TIGR04141 359787000316 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 359787000317 Uncharacterized protein YrkD from Bacillus subtilis and related domains; this domain superfamily was previously known as part of DUF156; Region: BsYrkD-like_DUF156; cd10155 359787000318 putative homotetramer interface [polypeptide binding]; other site 359787000319 putative homodimer interface [polypeptide binding]; other site 359787000320 putative metal binding site [ion binding]; other site 359787000321 putative homodimer-homodimer interface [polypeptide binding]; other site 359787000322 putative allosteric switch controlling residues; other site 359787000323 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 359787000324 active site residue [active] 359787000325 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 359787000326 CPxP motif; other site 359787000327 DsrE/DsrF-like family; Region: DrsE; cl00672 359787000328 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 359787000329 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 359787000330 active site residue [active] 359787000331 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 359787000332 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 359787000333 tRNA-dihydrouridine synthase [Translation, ribosomal structure and biogenesis]; Region: COG0042 359787000334 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 359787000335 FMN binding site [chemical binding]; other site 359787000336 active site 359787000337 catalytic residues [active] 359787000338 substrate binding site [chemical binding]; other site 359787000339 TfoX N-terminal domain; Region: TfoX_N; cl01167 359787000340 Catalytic domain of Bacillus cereus phosphatidylinositol-specific phospholipases C and similar proteins; Region: PI-PLCc_BcPLC_like; cd08586 359787000341 active site 359787000342 catalytic site [active] 359787000343 putative metal binding site [ion binding]; other site 359787000344 Protein of unknown function, DUF576; Region: DUF576; cl04553 359787000345 Protein of unknown function, DUF576; Region: DUF576; cl04553 359787000346 Protein of unknown function, DUF576; Region: DUF576; cl04553 359787000347 Protein of unknown function, DUF576; Region: DUF576; cl04553 359787000348 Protein of unknown function, DUF576; Region: DUF576; cl04553 359787000349 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 359787000350 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 359787000351 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 359787000352 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 359787000353 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 359787000354 metal binding site [ion binding]; metal-binding site 359787000355 dimer interface [polypeptide binding]; other site 359787000356 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 359787000357 Major Facilitator Superfamily; Region: MFS_1; pfam07690 359787000358 putative substrate translocation pore; other site 359787000359 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 359787000360 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 359787000361 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 359787000362 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 359787000363 PhoU domain; Region: PhoU; pfam01895 359787000364 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787000365 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 359787000366 EamA-like transporter family; Region: EamA; cl01037 359787000367 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 359787000368 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 359787000369 DNA-binding site [nucleotide binding]; DNA binding site 359787000370 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 359787000371 pyridoxal 5'-phosphate binding site [chemical binding]; other site 359787000372 homodimer interface [polypeptide binding]; other site 359787000373 catalytic residue [active] 359787000374 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 359787000375 glycolate transporter; Provisional; Region: PRK09695 359787000376 L-lactate permease; Region: Lactate_perm; cl00701 359787000377 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 359787000378 B domain; Region: B; pfam02216 359787000379 B domain; Region: B; pfam02216 359787000380 B domain; Region: B; pfam02216 359787000381 B domain; Region: B; pfam02216 359787000382 B domain; Region: B; pfam02216 359787000383 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 359787000384 putative peptidoglycan binding site; other site 359787000385 Helix-turn-helix domains; Region: HTH; cl00088 359787000386 Helix-turn-helix domains; Region: HTH; cl00088 359787000387 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 359787000388 ABC-ATPase subunit interface; other site 359787000389 dimer interface [polypeptide binding]; other site 359787000390 putative PBP binding regions; other site 359787000391 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 359787000392 ABC-ATPase subunit interface; other site 359787000393 dimer interface [polypeptide binding]; other site 359787000394 putative PBP binding regions; other site 359787000395 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 359787000396 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 359787000397 siderophore binding site; other site 359787000398 2,3-diaminopropionate biosynthesis protein SbnA; Region: PLP_SbnA_fam; TIGR03945 359787000399 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 359787000400 dimer interface [polypeptide binding]; other site 359787000401 pyridoxal 5'-phosphate binding site [chemical binding]; other site 359787000402 catalytic residue [active] 359787000403 2,3-diaminopropionate biosynthesis protein SbnB; Region: dehyd_SbnB_fam; TIGR03944 359787000404 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787000405 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 359787000406 IucA / IucC family; Region: IucA_IucC; pfam04183 359787000407 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 359787000408 drug efflux system protein MdtG; Provisional; Region: PRK09874 359787000409 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 359787000410 putative substrate translocation pore; other site 359787000411 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 359787000412 IucA / IucC family; Region: IucA_IucC; pfam04183 359787000413 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 359787000414 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 359787000415 IucA / IucC family; Region: IucA_IucC; pfam04183 359787000416 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 359787000417 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase [Carbohydrate transport and metabolism]; Region: HpcH; COG3836 359787000418 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 359787000419 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 359787000420 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme PvsE; Region: PLPDE_III_PvsE_like; cd06843 359787000421 dimer interface [polypeptide binding]; other site 359787000422 active site 359787000423 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 359787000424 catalytic residues [active] 359787000425 substrate binding site [chemical binding]; other site 359787000426 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 359787000427 ParB-like nuclease domain; Region: ParBc; cl02129 359787000428 acetoin reductase; Validated; Region: PRK08643 359787000429 meso-2,3-butanediol dehydrogenase-like, classical (c) SDRs; Region: meso-BDH-like_SDR_c; cd05366 359787000430 NAD binding site [chemical binding]; other site 359787000431 homotetramer interface [polypeptide binding]; other site 359787000432 homodimer interface [polypeptide binding]; other site 359787000433 active site 359787000434 substrate binding site [chemical binding]; other site 359787000435 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787000436 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 359787000437 NAD(P) binding site [chemical binding]; other site 359787000438 active site 359787000439 Bacterial sugar transferase; Region: Bac_transf; cl00939 359787000440 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 359787000441 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 359787000442 putative ADP-binding pocket [chemical binding]; other site 359787000443 O-Antigen Polymerase; Region: Wzy_C; cl04850 359787000444 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 359787000445 MatE; Region: MatE; cl10513 359787000446 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 359787000447 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 359787000448 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 359787000449 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 359787000450 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 359787000451 DNA-binding site [nucleotide binding]; DNA binding site 359787000452 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 359787000453 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 359787000454 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 359787000455 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 359787000456 intersubunit interface [polypeptide binding]; other site 359787000457 active site 359787000458 catalytic residue [active] 359787000459 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 359787000460 Sulfatase; Region: Sulfatase; cl10460 359787000461 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 359787000462 dimer interface [polypeptide binding]; other site 359787000463 conserved gate region; other site 359787000464 putative PBP binding loops; other site 359787000465 ABC-ATPase subunit interface; other site 359787000466 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 359787000467 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 359787000468 dimer interface [polypeptide binding]; other site 359787000469 conserved gate region; other site 359787000470 ABC-ATPase subunit interface; other site 359787000471 phosphonate ABC transporter, ATP-binding protein; Region: ABC_phnC; TIGR02315 359787000472 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 359787000473 Walker A/P-loop; other site 359787000474 ATP binding site [chemical binding]; other site 359787000475 Q-loop/lid; other site 359787000476 ABC transporter signature motif; other site 359787000477 Walker B; other site 359787000478 D-loop; other site 359787000479 H-loop/switch region; other site 359787000480 ABC-type phosphate/phosphonate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PhnD; COG3221 359787000481 NMT1-like family; Region: NMT1_2; cl15260 359787000482 ABC-type uncharacterized transport system; Region: ABC_transp_aux; pfam09822 359787000483 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 359787000484 Escherichia coli CpdB and related proteins, N-terminal metallophosphatase domain; Region: MPP_CpdB_N; cd07410 359787000485 active site 359787000486 metal binding site [ion binding]; metal-binding site 359787000487 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 359787000488 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 359787000489 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 359787000490 non-specific DNA binding site [nucleotide binding]; other site 359787000491 salt bridge; other site 359787000492 sequence-specific DNA binding site [nucleotide binding]; other site 359787000493 Domain of unknown function (DUF955); Region: DUF955; cl01076 359787000494 bifunctional acetaldehyde-CoA/alcohol dehydrogenase; Provisional; Region: PRK13805 359787000495 Coenzyme A acylating aldehyde dehydrogenase (ACDH), ALDH family 20-like; Region: ALDH_F20_ACDH; cd07122 359787000496 putative catalytic cysteine [active] 359787000497 C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD); Region: AAD_C; cd08178 359787000498 putative active site [active] 359787000499 metal binding site [ion binding]; metal-binding site 359787000500 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 359787000501 Chain length determinant protein; Region: Wzz; cl15801 359787000502 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 359787000503 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 359787000504 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 359787000505 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 359787000506 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787000507 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 359787000508 NAD(P) binding site [chemical binding]; other site 359787000509 homodimer interface [polypeptide binding]; other site 359787000510 substrate binding site [chemical binding]; other site 359787000511 active site 359787000512 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 359787000513 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 359787000514 NAD(P) binding site [chemical binding]; other site 359787000515 homodimer interface [polypeptide binding]; other site 359787000516 substrate binding site [chemical binding]; other site 359787000517 active site 359787000518 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 359787000519 capsular polysaccharide assembling protein (CAPF) like, extended (e) SDRs; Region: CAPF_like_SDR_e; cd05261 359787000520 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 359787000521 putative NAD(P) binding site [chemical binding]; other site 359787000522 active site 359787000523 putative substrate binding site [chemical binding]; other site 359787000524 Cupin domain; Region: Cupin_2; cl09118 359787000525 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 359787000526 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 359787000527 active site 359787000528 homodimer interface [polypeptide binding]; other site 359787000529 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 359787000530 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 359787000531 trimer interface [polypeptide binding]; other site 359787000532 active site 359787000533 substrate binding site [chemical binding]; other site 359787000534 CoA binding site [chemical binding]; other site 359787000535 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 359787000536 O-Antigen ligase; Region: Wzy_C; cl04850 359787000537 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 359787000538 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 359787000539 Bacterial sugar transferase; Region: Bac_transf; cl00939 359787000540 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 359787000541 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 359787000542 putative NAD(P) binding site [chemical binding]; other site 359787000543 active site 359787000544 putative substrate binding site [chemical binding]; other site 359787000545 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 359787000546 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787000547 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 359787000548 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787000549 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 359787000550 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 359787000551 active site 359787000552 homodimer interface [polypeptide binding]; other site 359787000553 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 359787000554 Protein of unknown function (DUF454); Region: DUF454; cl01063 359787000555 Uncharacterized Staphylococcus aureus AldA1 (SACOL0154) aldehyde dehydrogenase-like; Region: ALDH_StaphAldA1; cd07117 359787000556 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 359787000557 NAD(P) binding site [chemical binding]; other site 359787000558 catalytic residues [active] 359787000559 Cation efflux family; Region: Cation_efflux; cl00316 359787000560 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 359787000561 Protein of unknown function (DUF4242); Region: DUF4242; pfam14026 359787000562 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 359787000563 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 359787000564 Walker A/P-loop; other site 359787000565 ATP binding site [chemical binding]; other site 359787000566 Q-loop/lid; other site 359787000567 ABC transporter signature motif; other site 359787000568 Walker B; other site 359787000569 D-loop; other site 359787000570 H-loop/switch region; other site 359787000571 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 359787000572 NMT1-like family; Region: NMT1_2; cl15260 359787000573 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 359787000574 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 359787000575 active site 359787000576 Uncharacterized conserved protein (DUF2294); Region: DUF2294; cl02390 359787000577 formate dehydrogenase; Provisional; Region: PRK07574 359787000578 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787000579 putative transporter; Provisional; Region: PRK10054 359787000580 Condensation domain; Region: Condensation; pfam00668 359787000581 peptide synthase; Provisional; Region: PRK12316 359787000582 AMP-binding enzyme; Region: AMP-binding; cl15778 359787000583 Phosphopantetheine attachment site; Region: PP-binding; cl09936 359787000584 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 359787000585 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 359787000586 AMP-binding enzyme; Region: AMP-binding; cl15778 359787000587 acetyl-CoA synthetase; Provisional; Region: PRK00174 359787000588 Phosphopantetheine attachment site; Region: PP-binding; cl09936 359787000589 thioester reductase domain; Region: Thioester-redct; TIGR01746 359787000590 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787000591 NAD(P) binding site [chemical binding]; other site 359787000592 active site 359787000593 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 359787000594 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 359787000595 Protein of unknown function (DUF1440); Region: DUF1440; cl01380 359787000596 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 359787000597 nucleotide binding site [chemical binding]; other site 359787000598 N-acetyl-L-glutamate binding site [chemical binding]; other site 359787000599 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 359787000600 heterotetramer interface [polypeptide binding]; other site 359787000601 active site pocket [active] 359787000602 cleavage site 359787000603 N-acetyl-gamma-glutamyl-phosphate reductase, common form; Region: argC; TIGR01850 359787000604 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787000605 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 359787000606 ornithine--oxo-acid transaminase; Provisional; Region: rocD; PRK04073 359787000607 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 359787000608 inhibitor-cofactor binding pocket; inhibition site 359787000609 pyridoxal 5'-phosphate binding site [chemical binding]; other site 359787000610 catalytic residue [active] 359787000611 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 359787000612 Isochorismatase family; Region: Isochorismatase; pfam00857 359787000613 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 359787000614 catalytic triad [active] 359787000615 conserved cis-peptide bond; other site 359787000616 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 359787000617 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 359787000618 dimer interface [polypeptide binding]; other site 359787000619 PYR/PP interface [polypeptide binding]; other site 359787000620 TPP binding site [chemical binding]; other site 359787000621 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 359787000622 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 359787000623 TPP-binding site [chemical binding]; other site 359787000624 dimer interface [polypeptide binding]; other site 359787000625 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 359787000626 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 359787000627 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 359787000628 active site turn [active] 359787000629 phosphorylation site [posttranslational modification] 359787000630 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 359787000631 HPr interaction site; other site 359787000632 glycerol kinase (GK) interaction site [polypeptide binding]; other site 359787000633 active site 359787000634 phosphorylation site [posttranslational modification] 359787000635 Bacterial protein of unknown function (DUF871); Region: DUF871; cl15404 359787000636 N-acetylmuramic acid-6-phosphate etherase; Reviewed; Region: murQ; PRK05441 359787000637 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 359787000638 putative active site [active] 359787000639 PTS system N-acetylmuramic acid transporter subunits EIIBC; Reviewed; Region: murP; PRK09586 359787000640 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 359787000641 active site turn [active] 359787000642 phosphorylation site [posttranslational modification] 359787000643 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 359787000644 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 359787000645 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 359787000646 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 359787000647 putative active site [active] 359787000648 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 359787000649 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 359787000650 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 359787000651 ATP binding site [chemical binding]; other site 359787000652 putative Mg++ binding site [ion binding]; other site 359787000653 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 359787000654 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 359787000655 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 359787000656 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 359787000657 Walker A/P-loop; other site 359787000658 ATP binding site [chemical binding]; other site 359787000659 Q-loop/lid; other site 359787000660 ABC transporter signature motif; other site 359787000661 Walker B; other site 359787000662 D-loop; other site 359787000663 H-loop/switch region; other site 359787000664 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 359787000665 FtsX-like permease family; Region: FtsX; cl15850 359787000666 Integral membrane protein DUF95; Region: DUF95; cl00572 359787000667 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 359787000668 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 359787000669 Walker A/P-loop; other site 359787000670 ATP binding site [chemical binding]; other site 359787000671 Q-loop/lid; other site 359787000672 ABC transporter signature motif; other site 359787000673 Walker B; other site 359787000674 D-loop; other site 359787000675 H-loop/switch region; other site 359787000676 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 359787000677 non-specific DNA binding site [nucleotide binding]; other site 359787000678 salt bridge; other site 359787000679 sequence-specific DNA binding site [nucleotide binding]; other site 359787000680 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 359787000681 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 359787000682 Walker A/P-loop; other site 359787000683 ATP binding site [chemical binding]; other site 359787000684 Q-loop/lid; other site 359787000685 ABC transporter signature motif; other site 359787000686 Walker B; other site 359787000687 D-loop; other site 359787000688 H-loop/switch region; other site 359787000689 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 359787000690 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 359787000691 Walker A/P-loop; other site 359787000692 ATP binding site [chemical binding]; other site 359787000693 Q-loop/lid; other site 359787000694 ABC transporter signature motif; other site 359787000695 Walker B; other site 359787000696 D-loop; other site 359787000697 H-loop/switch region; other site 359787000698 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 359787000699 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 359787000700 dimer interface [polypeptide binding]; other site 359787000701 conserved gate region; other site 359787000702 putative PBP binding loops; other site 359787000703 ABC-ATPase subunit interface; other site 359787000704 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 359787000705 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 359787000706 dimer interface [polypeptide binding]; other site 359787000707 conserved gate region; other site 359787000708 ABC-ATPase subunit interface; other site 359787000709 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 359787000710 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 359787000711 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 359787000712 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 359787000713 Protein of unknown function, DUF576; Region: DUF576; cl04553 359787000714 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 359787000715 Peptidase family M23; Region: Peptidase_M23; pfam01551 359787000716 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 359787000717 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 359787000718 Walker A/P-loop; other site 359787000719 ATP binding site [chemical binding]; other site 359787000720 Q-loop/lid; other site 359787000721 ABC transporter signature motif; other site 359787000722 Walker B; other site 359787000723 D-loop; other site 359787000724 H-loop/switch region; other site 359787000725 TOBE domain; Region: TOBE_2; cl01440 359787000726 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 359787000727 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 359787000728 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 359787000729 dimer interface [polypeptide binding]; other site 359787000730 conserved gate region; other site 359787000731 ABC-ATPase subunit interface; other site 359787000732 ABC-type maltose transport systems, permease component [Carbohydrate transport and metabolism]; Region: MalG; COG3833 359787000733 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 359787000734 dimer interface [polypeptide binding]; other site 359787000735 conserved gate region; other site 359787000736 putative PBP binding loops; other site 359787000737 ABC-ATPase subunit interface; other site 359787000738 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 359787000739 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787000740 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 359787000741 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 359787000742 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787000743 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 359787000744 AP endonuclease family 2 C terminus; Region: AP_endonuc_2_N; pfam07582 359787000745 Phospholipid methyltransferase; Region: PEMT; cl00763 359787000746 sugar phosphate antiporter; Reviewed; Region: uhpT; PRK09556 359787000747 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 359787000748 putative substrate translocation pore; other site 359787000749 Response regulator receiver domain; Region: Response_reg; pfam00072 359787000750 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 359787000751 active site 359787000752 phosphorylation site [posttranslational modification] 359787000753 intermolecular recognition site; other site 359787000754 dimerization interface [polypeptide binding]; other site 359787000755 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 359787000756 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 359787000757 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 359787000758 Predicted signal transduction protein with a C-terminal ATPase domain [Signal transduction mechanisms]; Region: COG2972 359787000759 Histidine kinase; Region: His_kinase; pfam06580 359787000760 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 359787000761 ATP binding site [chemical binding]; other site 359787000762 Mg2+ binding site [ion binding]; other site 359787000763 G-X-G motif; other site 359787000764 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 359787000765 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 359787000766 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 359787000767 Pyruvate formate lyase 1; Region: PFL1; cd01678 359787000768 coenzyme A binding site [chemical binding]; other site 359787000769 active site 359787000770 catalytic residues [active] 359787000771 glycine loop; other site 359787000772 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 359787000773 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 359787000774 FeS/SAM binding site; other site 359787000775 Membrane domain of glycerophosphoryl diester phosphodiesterase; Region: GPDPase_memb; cl01974 359787000776 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 359787000777 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_memb_like; cd08579 359787000778 putative active site [active] 359787000779 catalytic site [active] 359787000780 putative metal binding site [ion binding]; other site 359787000781 Staphylococcal complement inhibitor SCIN; Region: CompInhib_SCIN; pfam11546 359787000782 Staphylococcus aureus coagulase; Region: Coagulase; pfam08764 359787000783 Staphylocoagulase repeat; Region: Staphylcoagulse; pfam04022 359787000784 Staphylocoagulase repeat; Region: Staphylcoagulse; pfam04022 359787000785 Staphylocoagulase repeat; Region: Staphylcoagulse; pfam04022 359787000786 Staphylocoagulase repeat; Region: Staphylcoagulse; pfam04022 359787000787 Staphylocoagulase repeat; Region: Staphylcoagulse; pfam04022 359787000788 Staphylocoagulase repeat; Region: Staphylcoagulse; pfam04022 359787000789 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 359787000790 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 359787000791 dimer interface [polypeptide binding]; other site 359787000792 active site 359787000793 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 359787000794 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787000795 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 359787000796 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 359787000797 substrate binding site [chemical binding]; other site 359787000798 oxyanion hole (OAH) forming residues; other site 359787000799 trimer interface [polypeptide binding]; other site 359787000800 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 359787000801 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 359787000802 active site 359787000803 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 359787000804 AMP-binding enzyme; Region: AMP-binding; cl15778 359787000805 Acyl CoA:acetate/3-ketoacid CoA transferase [Lipid metabolism]; Region: COG4670 359787000806 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 359787000807 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 359787000808 Protease prsW family; Region: PrsW-protease; cl15823 359787000809 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 359787000810 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 359787000811 Protein of unknown function, DUF488; Region: DUF488; cl01246 359787000812 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 359787000813 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 359787000814 heme-binding site [chemical binding]; other site 359787000815 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 359787000816 FAD binding pocket [chemical binding]; other site 359787000817 FAD binding motif [chemical binding]; other site 359787000818 phosphate binding motif [ion binding]; other site 359787000819 beta-alpha-beta structure motif; other site 359787000820 NAD binding pocket [chemical binding]; other site 359787000821 Heme binding pocket [chemical binding]; other site 359787000822 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 359787000823 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 359787000824 tetramer (dimer of dimers) interface [polypeptide binding]; other site 359787000825 NAD binding site [chemical binding]; other site 359787000826 dimer interface [polypeptide binding]; other site 359787000827 substrate binding site [chemical binding]; other site 359787000828 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 359787000829 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 359787000830 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 359787000831 active site turn [active] 359787000832 phosphorylation site [posttranslational modification] 359787000833 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 359787000834 active site 359787000835 tetramer interface [polypeptide binding]; other site 359787000836 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 359787000837 Helix-turn-helix domains; Region: HTH; cl00088 359787000838 PRD domain; Region: PRD; cl15445 359787000839 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 359787000840 P-loop; other site 359787000841 active site 359787000842 phosphorylation site [posttranslational modification] 359787000843 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 359787000844 active site 359787000845 phosphorylation site [posttranslational modification] 359787000846 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 359787000847 active site 359787000848 phosphorylation site [posttranslational modification] 359787000849 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 359787000850 P-loop; other site 359787000851 active site 359787000852 phosphorylation site [posttranslational modification] 359787000853 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 359787000854 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 359787000855 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH4; cd08258 359787000856 putative NAD(P) binding site [chemical binding]; other site 359787000857 catalytic Zn binding site [ion binding]; other site 359787000858 structural Zn binding site [ion binding]; other site 359787000859 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 359787000860 NAD(P)-dependent sugar dehydrogenases; Region: sugar_DH; cd08236 359787000861 putative NAD(P) binding site [chemical binding]; other site 359787000862 catalytic Zn binding site [ion binding]; other site 359787000863 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 359787000864 substrate binding site; other site 359787000865 dimer interface; other site 359787000866 ribitol-5-phosphate dehydrogenase; Region: ribitol-5-phosphate_DH; cd08237 359787000867 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 359787000868 putative NAD(P) binding site [chemical binding]; other site 359787000869 putative catalytic Zn binding site [ion binding]; other site 359787000870 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 359787000871 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 359787000872 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 359787000873 substrate binding site; other site 359787000874 dimer interface; other site 359787000875 ribitol-5-phosphate dehydrogenase; Region: ribitol-5-phosphate_DH; cd08237 359787000876 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 359787000877 putative NAD(P) binding site [chemical binding]; other site 359787000878 putative catalytic Zn binding site [ion binding]; other site 359787000879 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 359787000880 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 359787000881 active site 359787000882 cell wall biosynthesis protein ScdA; Provisional; Region: PRK13276 359787000883 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 359787000884 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 359787000885 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 359787000886 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 359787000887 Histidine kinase; Region: His_kinase; pfam06580 359787000888 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 359787000889 two-component response regulator; Provisional; Region: PRK14084 359787000890 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 359787000891 active site 359787000892 phosphorylation site [posttranslational modification] 359787000893 intermolecular recognition site; other site 359787000894 dimerization interface [polypeptide binding]; other site 359787000895 LytTr DNA-binding domain; Region: LytTR; cl04498 359787000896 LrgA family; Region: LrgA; cl00608 359787000897 LrgB-like family; Region: LrgB; cl00596 359787000898 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 359787000899 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 359787000900 DNA-binding site [nucleotide binding]; DNA binding site 359787000901 UTRA domain; Region: UTRA; cl01230 359787000902 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 359787000903 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 359787000904 HPr interaction site; other site 359787000905 glycerol kinase (GK) interaction site [polypeptide binding]; other site 359787000906 active site 359787000907 phosphorylation site [posttranslational modification] 359787000908 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 359787000909 Methyltransferase domain; Region: Methyltransf_31; pfam13847 359787000910 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 359787000911 S-adenosylmethionine binding site [chemical binding]; other site 359787000912 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 359787000913 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 359787000914 substrate binding site [chemical binding]; other site 359787000915 dimer interface [polypeptide binding]; other site 359787000916 ATP binding site [chemical binding]; other site 359787000917 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 359787000918 Sugar transport protein; Region: Sugar_transport; pfam06800 359787000919 Transcriptional regulators [Transcription]; Region: PurR; COG1609 359787000920 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 359787000921 DNA binding site [nucleotide binding] 359787000922 domain linker motif; other site 359787000923 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 359787000924 dimerization interface [polypeptide binding]; other site 359787000925 ligand binding site [chemical binding]; other site 359787000926 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 359787000927 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 359787000928 Linear amide C-N hydrolases, choloylglycine hydrolase family; Region: CBAH; pfam02275 359787000929 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 359787000930 active site 359787000931 Surface antigen [General function prediction only]; Region: COG3942 359787000932 Peptidase family M23; Region: Peptidase_M23; pfam01551 359787000933 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 359787000934 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 359787000935 Walker A/P-loop; other site 359787000936 ATP binding site [chemical binding]; other site 359787000937 Q-loop/lid; other site 359787000938 ABC transporter signature motif; other site 359787000939 Walker B; other site 359787000940 D-loop; other site 359787000941 H-loop/switch region; other site 359787000942 Surface antigen [General function prediction only]; Region: COG3942 359787000943 NlpC/P60 family; Region: NLPC_P60; cl11438 359787000944 Proteins of 100 residues with WXG; Region: WXG100; cl02005 359787000945 Predicted membrane protein [Function unknown]; Region: COG1511 359787000946 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 359787000947 ABC-2 type transporter; Region: ABC2_membrane; cl11417 359787000948 WXG100 protein secretion system (Wss), protein EssA; Region: EssA; cl11266 359787000949 Ubiquitin-like proteins; Region: UBQ; cl00155 359787000950 WXG100 protein secretion system (Wss), protein YukC; Region: YukC; cl01868 359787000951 DNA transporter; Region: FtsK_SpoIIIE_N; pfam12538 359787000952 type VII secretion protein EssC, C-terminal domain; Region: T7_EssCb_Firm; TIGR03928 359787000953 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 359787000954 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 359787000955 Proteins of 100 residues with WXG; Region: WXG100; cl02005 359787000956 Uncharacterized conserved protein [Function unknown]; Region: COG5444 359787000957 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cl00089 359787000958 Protein of unknown function, DUF600; Region: DUF600; cl04640 359787000959 Protein of unknown function, DUF600; Region: DUF600; cl04640 359787000960 Protein of unknown function, DUF600; Region: DUF600; cl04640 359787000961 Protein of unknown function, DUF600; Region: DUF600; cl04640 359787000962 Protein of unknown function, DUF600; Region: DUF600; cl04640 359787000963 Protein of unknown function, DUF600; Region: DUF600; cl04640 359787000964 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 359787000965 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 359787000966 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 359787000967 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 359787000968 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 359787000969 FtsX-like permease family; Region: FtsX; cl15850 359787000970 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 359787000971 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 359787000972 Walker A/P-loop; other site 359787000973 ATP binding site [chemical binding]; other site 359787000974 Q-loop/lid; other site 359787000975 ABC transporter signature motif; other site 359787000976 Walker B; other site 359787000977 D-loop; other site 359787000978 H-loop/switch region; other site 359787000979 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 359787000980 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 359787000981 putative kinase; Provisional; Region: PRK09954 359787000982 Helix-turn-helix domains; Region: HTH; cl00088 359787000983 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 359787000984 substrate binding site [chemical binding]; other site 359787000985 ATP binding site [chemical binding]; other site 359787000986 Indigoidine synthase A like protein; Region: Indigoidine_A; cl00983 359787000987 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 359787000988 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 359787000989 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 359787000990 Sodium:solute symporter family; Region: SSF; cl00456 359787000991 putative transporter; Provisional; Region: PRK10484 359787000992 N-Acetylneuraminic acid aldolase, also called N-acetylneuraminate lyase (NAL); Region: NAL; cd00954 359787000993 N-acetylneuraminate lyase; Region: nanA; TIGR00683 359787000994 inhibitor site; inhibition site 359787000995 active site 359787000996 dimer interface [polypeptide binding]; other site 359787000997 catalytic residue [active] 359787000998 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 359787000999 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 359787001000 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 359787001001 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 359787001002 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 359787001003 putative active site [active] 359787001004 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 359787001005 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 359787001006 putative active site cavity [active] 359787001007 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 359787001008 Nucleoside recognition; Region: Gate; cl00486 359787001009 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 359787001010 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 359787001011 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 359787001012 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 359787001013 Tn1545-related conjugative transposon integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes bacterial (gram positive) and phage integrases, including those similar to Tn1545, Tn5252, and...; Region: INT_Tn1545_C; cd01199 359787001014 Int/Topo IB signature motif; other site 359787001015 Domain of unknown function (DUF955); Region: DUF955; cl01076 359787001016 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 359787001017 non-specific DNA binding site [nucleotide binding]; other site 359787001018 salt bridge; other site 359787001019 sequence-specific DNA binding site [nucleotide binding]; other site 359787001020 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 359787001021 non-specific DNA binding site [nucleotide binding]; other site 359787001022 salt bridge; other site 359787001023 sequence-specific DNA binding site [nucleotide binding]; other site 359787001024 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 359787001025 non-specific DNA binding site [nucleotide binding]; other site 359787001026 salt bridge; other site 359787001027 sequence-specific DNA binding site [nucleotide binding]; other site 359787001028 AntA/AntB antirepressor; Region: AntA; cl01430 359787001029 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 359787001030 Helix-turn-helix domains; Region: HTH; cl00088 359787001031 Protein of unknown function (DUF1270); Region: DUF1270; pfam06900 359787001032 Hypothetical protein of unknown function (DUF2482); Region: DUF2482; pfam10655 359787001033 Protein of unknown function (DUF1108); Region: DUF1108; pfam06531 359787001034 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 359787001035 RecT family; Region: RecT; cl04285 359787001036 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 359787001037 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 359787001038 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 359787001039 dimer interface [polypeptide binding]; other site 359787001040 ssDNA binding site [nucleotide binding]; other site 359787001041 tetramer (dimer of dimers) interface [polypeptide binding]; other site 359787001042 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 359787001043 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 359787001044 Endodeoxyribonuclease RusA; Region: RusA; cl01885 359787001045 PVL ORF-50-like family; Region: PVL_ORF50; pfam07768 359787001046 Phage Conserved Open Reading Frame 51; Region: Phage_Orf51; pfam06194 359787001047 YopX protein; Region: YopX; cl09859 359787001048 Protein of unknown function (DUF1024); Region: DUF1024; pfam06260 359787001049 dUTPase; Region: dUTPase_2; pfam08761 359787001050 Protein of unknown function (DUF1381); Region: DUF1381; pfam07129 359787001051 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 359787001052 Transcriptional activator RinB; Region: RinB; pfam06116 359787001053 phage transcriptional activator, RinA family; Region: phage_rinA; TIGR01636 359787001054 phage transcriptional regulator, ArpU family; Region: phage_arpU; TIGR01637 359787001055 Terminase small subunit; Region: Terminase_2; cl01513 359787001056 Phage terminase large subunit; Region: Terminase_3; cl12054 359787001057 Terminase-like family; Region: Terminase_6; pfam03237 359787001058 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 359787001059 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 359787001060 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 359787001061 Phage minor structural protein GP20; Region: Phage_GP20; pfam06810 359787001062 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 359787001063 Head-Tail Connector Protein gp15 of Bacteriophage SPP1 and similar proteins; Region: gp15; cd08055 359787001064 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 359787001065 Protein of unknown function (DUF3168); Region: DUF3168; pfam11367 359787001066 Phage major tail protein, TP901-1; Region: PhageMaj_Tail; cl11463 359787001067 Phage protein; Region: DUF3647; cl10335 359787001068 Phage-related protein [Function unknown]; Region: COG5412 359787001069 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 359787001070 Phage tail protein; Region: Sipho_tail; pfam05709 359787001071 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 359787001072 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 359787001073 active site 359787001074 catalytic triad [active] 359787001075 oxyanion hole [active] 359787001076 Domain of unknown function (DUF2479); Region: DUF2479; pfam10651 359787001077 Protein of unknown function (DUF2977); Region: DUF2977; pfam11192 359787001078 Phage uncharacterized protein (Phage_XkdX); Region: Phage_XkdX; cl09900 359787001079 Protein of unknown function (DUF2951); Region: DUF2951; pfam11166 359787001080 NlpC/P60 family; Region: NLPC_P60; cl11438 359787001081 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 359787001082 Domain of unknown function (DUF2479); Region: DUF2479; pfam10651 359787001083 Bacteriophage holin; Region: Phage_holin_1; cl02344 359787001084 NlpC/P60 family; Region: NLPC_P60; cl11438 359787001085 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 359787001086 amidase catalytic site [active] 359787001087 Zn binding residues [ion binding]; other site 359787001088 substrate binding site [chemical binding]; other site 359787001089 Bacterial SH3 domain; Region: SH3_3; cl02551 359787001090 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 359787001091 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 359787001092 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 359787001093 putative active site [active] 359787001094 putative FMN binding site [chemical binding]; other site 359787001095 putative substrate binding site [chemical binding]; other site 359787001096 putative catalytic residue [active] 359787001097 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 359787001098 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 359787001099 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 359787001100 lipoyl attachment site [posttranslational modification]; other site 359787001101 Helix-turn-helix domains; Region: HTH; cl00088 359787001102 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 359787001103 putative ADP-ribose binding site [chemical binding]; other site 359787001104 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 359787001105 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 359787001106 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 359787001107 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 359787001108 aldehyde reductase, extended (e) SDRs; Region: AR_SDR_e; cd05227 359787001109 cinnamyl-alcohol dehydrogenase family protein; Region: PLN02662 359787001110 NADP binding site [chemical binding]; other site 359787001111 putative substrate binding site [chemical binding]; other site 359787001112 active site 359787001113 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 359787001114 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 359787001115 P-loop; other site 359787001116 active site 359787001117 phosphorylation site [posttranslational modification] 359787001118 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 359787001119 active site 359787001120 phosphorylation site [posttranslational modification] 359787001121 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 359787001122 Helix-turn-helix domains; Region: HTH; cl00088 359787001123 Helix-turn-helix domains; Region: HTH; cl00088 359787001124 PRD domain; Region: PRD; cl15445 359787001125 PRD domain; Region: PRD; cl15445 359787001126 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 359787001127 P-loop; other site 359787001128 active site 359787001129 phosphorylation site [posttranslational modification] 359787001130 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 359787001131 active site 359787001132 phosphorylation site [posttranslational modification] 359787001133 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 359787001134 Helix-turn-helix domains; Region: HTH; cl00088 359787001135 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 359787001136 MatE; Region: MatE; cl10513 359787001137 MatE; Region: MatE; cl10513 359787001138 MepB protein; Region: MepB; cl01985 359787001139 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 359787001140 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 359787001141 putative substrate translocation pore; other site 359787001142 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 359787001143 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 359787001144 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 359787001145 Zn binding site [ion binding]; other site 359787001146 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 359787001147 Zn binding site [ion binding]; other site 359787001148 putative luciferase-like monooxygenase, FMN-dependent, CE1758 family; Region: LLM_CE1758_fam; TIGR04036 359787001149 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 359787001150 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 359787001151 Conserved hypothetical protein 698; Region: Cons_hypoth698; cl01075 359787001152 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 359787001153 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 359787001154 Imelysin; Region: Peptidase_M75; cl09159 359787001155 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 359787001156 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 359787001157 Iron permease FTR1 family; Region: FTR1; cl00475 359787001158 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 359787001159 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 359787001160 Protein of unknown function (DUF1398); Region: DUF1398; cl11576 359787001161 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 359787001162 non-specific DNA binding site [nucleotide binding]; other site 359787001163 salt bridge; other site 359787001164 sequence-specific DNA binding site [nucleotide binding]; other site 359787001165 Protein of unknown function (DUF3169); Region: DUF3169; pfam11368 359787001166 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 359787001167 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 359787001168 Walker A/P-loop; other site 359787001169 ATP binding site [chemical binding]; other site 359787001170 Q-loop/lid; other site 359787001171 ABC transporter signature motif; other site 359787001172 Walker B; other site 359787001173 D-loop; other site 359787001174 H-loop/switch region; other site 359787001175 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 359787001176 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 359787001177 putative acyltransferase; Provisional; Region: PRK05790 359787001178 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 359787001179 dimer interface [polypeptide binding]; other site 359787001180 active site 359787001181 Putative cyclase; Region: Cyclase; cl00814 359787001182 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 359787001183 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Region: met_syn_B12ind; TIGR01371 359787001184 THF binding site; other site 359787001185 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 359787001186 substrate binding site [chemical binding]; other site 359787001187 THF binding site; other site 359787001188 zinc-binding site [ion binding]; other site 359787001189 bifunctional homocysteine S-methyltransferase/5,10-methylenetetrahydrofolate reductase protein; Reviewed; Region: PRK08645 359787001190 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 359787001191 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 359787001192 FAD binding site [chemical binding]; other site 359787001193 cystathionine beta-lyase; Provisional; Region: PRK08064 359787001194 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 359787001195 homodimer interface [polypeptide binding]; other site 359787001196 substrate-cofactor binding pocket; other site 359787001197 pyridoxal 5'-phosphate binding site [chemical binding]; other site 359787001198 catalytic residue [active] 359787001199 cystathionine gamma-synthase; Reviewed; Region: PRK08247 359787001200 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 359787001201 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 359787001202 catalytic residue [active] 359787001203 ParB-like partition proteins; Region: parB_part; TIGR00180 359787001204 ParB-like nuclease domain; Region: ParBc; cl02129 359787001205 Mechanosensitive ion channel; Region: MS_channel; pfam00924 359787001206 Bacterial protein of unknown function (DUF951); Region: DUF951; cl01864 359787001207 GTP-binding protein YchF; Reviewed; Region: PRK09601 359787001208 YchF GTPase; Region: YchF; cd01900 359787001209 G1 box; other site 359787001210 GTP/Mg2+ binding site [chemical binding]; other site 359787001211 Switch I region; other site 359787001212 G2 box; other site 359787001213 Switch II region; other site 359787001214 G3 box; other site 359787001215 G4 box; other site 359787001216 G5 box; other site 359787001217 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 359787001218 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 359787001219 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 359787001220 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 359787001221 dimer interface [polypeptide binding]; other site 359787001222 ssDNA binding site [nucleotide binding]; other site 359787001223 tetramer (dimer of dimers) interface [polypeptide binding]; other site 359787001224 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 359787001225 Abi-like protein; Region: Abi_2; cl01988 359787001226 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 359787001227 Protein of unknown function (DUF1093); Region: DUF1093; cl02185 359787001228 Predicted membrane protein [Function unknown]; Region: COG3212 359787001229 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 359787001230 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 359787001231 non-specific DNA binding site [nucleotide binding]; other site 359787001232 salt bridge; other site 359787001233 sequence-specific DNA binding site [nucleotide binding]; other site 359787001234 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 359787001235 catalytic core [active] 359787001236 extracellular lipase, Pla-1/cef family; Region: lipase_Pla1_cef; TIGR03502 359787001237 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 359787001238 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 359787001239 catalytic residue [active] 359787001240 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 359787001241 catalytic residues [active] 359787001242 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787001243 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 359787001244 peroxiredoxin; Region: AhpC; TIGR03137 359787001245 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 359787001246 dimer interface [polypeptide binding]; other site 359787001247 decamer (pentamer of dimers) interface [polypeptide binding]; other site 359787001248 catalytic triad [active] 359787001249 peroxidatic and resolving cysteines [active] 359787001250 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 359787001251 dimer interface [polypeptide binding]; other site 359787001252 FMN binding site [chemical binding]; other site 359787001253 NADPH bind site [chemical binding]; other site 359787001254 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 359787001255 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 359787001256 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 359787001257 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 359787001258 active site 359787001259 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 359787001260 xanthine permease; Region: pbuX; TIGR03173 359787001261 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 359787001262 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 359787001263 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 359787001264 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 359787001265 active site 359787001266 GMP synthase; Reviewed; Region: guaA; PRK00074 359787001267 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 359787001268 AMP/PPi binding site [chemical binding]; other site 359787001269 candidate oxyanion hole; other site 359787001270 catalytic triad [active] 359787001271 potential glutamine specificity residues [chemical binding]; other site 359787001272 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 359787001273 ATP Binding subdomain [chemical binding]; other site 359787001274 Ligand Binding sites [chemical binding]; other site 359787001275 Dimerization subdomain; other site 359787001276 PemK-like protein; Region: PemK; cl00995 359787001277 Protein of unknown function (DUF1304); Region: DUF1304; cl01533 359787001278 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 359787001279 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 359787001280 NADP binding site [chemical binding]; other site 359787001281 superantigen-like protein; Reviewed; Region: PRK13037 359787001282 Domain of unknown function (DUF1954); Region: DUF1954; pfam09199 359787001283 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 359787001284 superantigen-like protein; Reviewed; Region: PRK13041 359787001285 Domain of unknown function (DUF1954); Region: DUF1954; pfam09199 359787001286 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 359787001287 superantigen-like protein; Reviewed; Region: PRK13335 359787001288 Domain of unknown function (DUF1954); Region: DUF1954; pfam09199 359787001289 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 359787001290 superantigen-like protein; Reviewed; Region: PRK13042 359787001291 Mucin-like glycoprotein; Region: Mucin; pfam01456 359787001292 Domain of unknown function (DUF1954); Region: DUF1954; pfam09199 359787001293 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 359787001294 superantigen-like protein 5; Reviewed; Region: PRK13035 359787001295 Domain of unknown function (DUF1954); Region: DUF1954; pfam09199 359787001296 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 359787001297 superantigen-like protein 7; Reviewed; Region: PRK13346 359787001298 Domain of unknown function (DUF1954); Region: DUF1954; pfam09199 359787001299 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 359787001300 superantigen-like protein; Reviewed; Region: PRK13039 359787001301 Domain of unknown function (DUF1954); Region: DUF1954; pfam09199 359787001302 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 359787001303 superantigen-like protein; Reviewed; Region: PRK13345 359787001304 Domain of unknown function (DUF1954); Region: DUF1954; pfam09199 359787001305 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 359787001306 superantigen-like protein 5; Reviewed; Region: PRK13035 359787001307 Domain of unknown function (DUF1954); Region: DUF1954; pfam09199 359787001308 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 359787001309 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 359787001310 HsdM N-terminal domain; Region: HsdM_N; pfam12161 359787001311 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787001312 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 359787001313 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 359787001314 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 359787001315 superantigen-like protein; Reviewed; Region: PRK13036 359787001316 Domain of unknown function (DUF1954); Region: DUF1954; pfam09199 359787001317 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 359787001318 Protein of unknown function, DUF576; Region: DUF576; cl04553 359787001319 Protein of unknown function, DUF576; Region: DUF576; cl04553 359787001320 Protein of unknown function, DUF576; Region: DUF576; cl04553 359787001321 Protein of unknown function, DUF576; Region: DUF576; cl04553 359787001322 Protein of unknown function, DUF576; Region: DUF576; cl04553 359787001323 Protein of unknown function, DUF576; Region: DUF576; cl04553 359787001324 Protein of unknown function, DUF576; Region: DUF576; cl04553 359787001325 Protein of unknown function, DUF576; Region: DUF576; cl04553 359787001326 Protein of unknown function, DUF576; Region: DUF576; cl04553 359787001327 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 359787001328 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 359787001329 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 359787001330 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 359787001331 NADH dehydrogenase subunit 5; Validated; Region: PRK08601 359787001332 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 359787001333 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3002 359787001334 Uncharacterized protein conserved in bacteria (DUF2309); Region: DUF2309; pfam10070 359787001335 Uncharacterized conserved protein (DUF2294); Region: DUF2294; cl02390 359787001336 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 359787001337 active site 359787001338 Esterase/lipase [General function prediction only]; Region: COG1647 359787001339 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 359787001340 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 359787001341 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 359787001342 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 359787001343 dimer interface [polypeptide binding]; other site 359787001344 pyridoxal 5'-phosphate binding site [chemical binding]; other site 359787001345 catalytic residue [active] 359787001346 cystathionine beta-lyase; Provisional; Region: PRK07671 359787001347 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 359787001348 homodimer interface [polypeptide binding]; other site 359787001349 substrate-cofactor binding pocket; other site 359787001350 pyridoxal 5'-phosphate binding site [chemical binding]; other site 359787001351 catalytic residue [active] 359787001352 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 359787001353 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 359787001354 Walker A/P-loop; other site 359787001355 ATP binding site [chemical binding]; other site 359787001356 Q-loop/lid; other site 359787001357 ABC transporter signature motif; other site 359787001358 Walker B; other site 359787001359 D-loop; other site 359787001360 H-loop/switch region; other site 359787001361 NIL domain; Region: NIL; cl09633 359787001362 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 359787001363 dimer interface [polypeptide binding]; other site 359787001364 conserved gate region; other site 359787001365 ABC-ATPase subunit interface; other site 359787001366 NMT1-like family; Region: NMT1_2; cl15260 359787001367 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 359787001368 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 359787001369 putative peptidoglycan binding site; other site 359787001370 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 359787001371 putative peptidoglycan binding site; other site 359787001372 NlpC/P60 family; Region: NLPC_P60; cl11438 359787001373 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 359787001374 nudix motif; other site 359787001375 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 359787001376 YibE/F-like protein; Region: YibE_F; cl02259 359787001377 YibE/F-like protein; Region: YibE_F; cl02259 359787001378 Helix-turn-helix domains; Region: HTH; cl00088 359787001379 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 359787001380 dimerization interface [polypeptide binding]; other site 359787001381 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 359787001382 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 359787001383 active site 359787001384 dimer interface [polypeptide binding]; other site 359787001385 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 359787001386 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 359787001387 active site 359787001388 FMN binding site [chemical binding]; other site 359787001389 substrate binding site [chemical binding]; other site 359787001390 3Fe-4S cluster binding site [ion binding]; other site 359787001391 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 359787001392 domain interface; other site 359787001393 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 359787001394 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787001395 NAD(P) binding site [chemical binding]; other site 359787001396 PTS system, trehalose-specific IIBC component; Region: PTS-IIBC-Tre; TIGR01992 359787001397 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 359787001398 active site turn [active] 359787001399 phosphorylation site [posttranslational modification] 359787001400 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 359787001401 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 359787001402 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 359787001403 Ca binding site [ion binding]; other site 359787001404 active site 359787001405 catalytic site [active] 359787001406 Domain of unknown function (DUF3459); Region: DUF3459; pfam11941 359787001407 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 359787001408 DNA-binding site [nucleotide binding]; DNA binding site 359787001409 trehalose operon repressor, B. subtilis-type; Region: trehalos_R_Bsub; TIGR02404 359787001410 UTRA domain; Region: UTRA; cl01230 359787001411 Predicted acetyltransferase [General function prediction only]; Region: COG3153 359787001412 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 359787001413 Coenzyme A binding pocket [chemical binding]; other site 359787001414 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 359787001415 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 359787001416 Walker A motif; other site 359787001417 ATP binding site [chemical binding]; other site 359787001418 Walker B motif; other site 359787001419 arginine finger; other site 359787001420 YbaB/EbfC DNA-binding family; Region: YbaB_DNA_bd; cl00494 359787001421 recombination protein RecR; Reviewed; Region: recR; PRK00076 359787001422 Helix-hairpin-helix DNA-binding motif class 1; Region: HhH1; smart00278 359787001423 RecR protein; Region: RecR; pfam02132 359787001424 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 359787001425 putative active site [active] 359787001426 putative metal-binding site [ion binding]; other site 359787001427 tetramer interface [polypeptide binding]; other site 359787001428 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 359787001429 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 359787001430 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 359787001431 catalytic residue [active] 359787001432 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 359787001433 thymidylate kinase; Validated; Region: tmk; PRK00698 359787001434 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 359787001435 TMP-binding site; other site 359787001436 ATP-binding site [chemical binding]; other site 359787001437 Nitrogen regulatory protein P-II; Region: P-II; cl00412 359787001438 DNA polymerase III subunit delta'; Validated; Region: PRK08058 359787001439 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 359787001440 PSP1 C-terminal conserved region; Region: PSP1; cl00770 359787001441 TSC-22/dip/bun family; Region: TSC22; cl01853 359787001442 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 359787001443 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787001444 The GIY-YIG domain of uncharacterized protein family UPF0213 related to structure-specific endonuclease SLX1; Region: GIY-YIG_UPF0213; cd10456 359787001445 GIY-YIG motif/motif A; other site 359787001446 putative active site [active] 359787001447 putative metal binding site [ion binding]; other site 359787001448 Predicted methyltransferases [General function prediction only]; Region: COG0313 359787001449 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 359787001450 methionyl-tRNA synthetase; Reviewed; Region: PRK12267 359787001451 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 359787001452 active site 359787001453 HIGH motif; other site 359787001454 KMSKS motif; other site 359787001455 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 359787001456 tRNA binding surface [nucleotide binding]; other site 359787001457 anticodon binding site; other site 359787001458 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 359787001459 dimer interface [polypeptide binding]; other site 359787001460 putative tRNA-binding site [nucleotide binding]; other site 359787001461 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 359787001462 active site 359787001463 ribonuclease M5; Region: 5S_RNA_mat_M5; TIGR00334 359787001464 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 359787001465 putative active site [active] 359787001466 putative metal binding site [ion binding]; other site 359787001467 Domain of unknown function (DUF4093); Region: DUF4093; pfam13331 359787001468 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787001469 Protein of unknown function (DUF1021); Region: DUF1021; cl01852 359787001470 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00128 359787001471 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 359787001472 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 359787001473 pur operon repressor; Provisional; Region: PRK09213 359787001474 Bacterial purine repressor, N-terminal; Region: PuR_N; pfam09182 359787001475 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 359787001476 active site 359787001477 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 359787001478 homotrimer interaction site [polypeptide binding]; other site 359787001479 putative active site [active] 359787001480 SpoVG; Region: SpoVG; cl00915 359787001481 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14354 359787001482 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 359787001483 Substrate binding site; other site 359787001484 Mg++ binding site; other site 359787001485 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 359787001486 active site 359787001487 substrate binding site [chemical binding]; other site 359787001488 CoA binding site [chemical binding]; other site 359787001489 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 359787001490 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 359787001491 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 359787001492 active site 359787001493 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 359787001494 5S rRNA interface [nucleotide binding]; other site 359787001495 CTC domain interface [polypeptide binding]; other site 359787001496 L16 interface [polypeptide binding]; other site 359787001497 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 359787001498 putative active site [active] 359787001499 catalytic residue [active] 359787001500 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 359787001501 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 359787001502 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 359787001503 ATP binding site [chemical binding]; other site 359787001504 putative Mg++ binding site [ion binding]; other site 359787001505 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 359787001506 nucleotide binding region [chemical binding]; other site 359787001507 ATP-binding site [chemical binding]; other site 359787001508 TRCF domain; Region: TRCF; cl04088 359787001509 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 359787001510 MatE; Region: MatE; cl10513 359787001511 Protein containing tetrapyrrole methyltransferase domain and MazG-like (predicted pyrophosphatase) domain [General function prediction only]; Region: COG3956 359787001512 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 359787001513 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 359787001514 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 359787001515 Septum formation initiator; Region: DivIC; cl11433 359787001516 hypothetical protein; Provisional; Region: PRK08582 359787001517 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 359787001518 RNA binding site [nucleotide binding]; other site 359787001519 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 359787001520 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 359787001521 Ligand Binding Site [chemical binding]; other site 359787001522 B3/4 domain; Region: B3_4; cl11458 359787001523 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 359787001524 active site 359787001525 FtsH Extracellular; Region: FtsH_ext; pfam06480 359787001526 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 359787001527 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 359787001528 Walker A motif; other site 359787001529 ATP binding site [chemical binding]; other site 359787001530 Walker B motif; other site 359787001531 arginine finger; other site 359787001532 Peptidase family M41; Region: Peptidase_M41; pfam01434 359787001533 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 359787001534 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 359787001535 dimerization interface [polypeptide binding]; other site 359787001536 domain crossover interface; other site 359787001537 redox-dependent activation switch; other site 359787001538 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 359787001539 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 359787001540 dimer interface [polypeptide binding]; other site 359787001541 pyridoxal 5'-phosphate binding site [chemical binding]; other site 359787001542 catalytic residue [active] 359787001543 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 359787001544 dihydropteroate synthase; Region: DHPS; TIGR01496 359787001545 substrate binding pocket [chemical binding]; other site 359787001546 dimer interface [polypeptide binding]; other site 359787001547 inhibitor binding site; inhibition site 359787001548 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 359787001549 homooctamer interface [polypeptide binding]; other site 359787001550 active site 359787001551 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 359787001552 catalytic center binding site [active] 359787001553 ATP binding site [chemical binding]; other site 359787001554 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 359787001555 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 359787001556 dimer interface [polypeptide binding]; other site 359787001557 putative anticodon binding site; other site 359787001558 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 359787001559 motif 1; other site 359787001560 active site 359787001561 motif 2; other site 359787001562 motif 3; other site 359787001563 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 359787001564 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 359787001565 DNA-binding site [nucleotide binding]; DNA binding site 359787001566 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 359787001567 pyridoxal 5'-phosphate binding site [chemical binding]; other site 359787001568 homodimer interface [polypeptide binding]; other site 359787001569 catalytic residue [active] 359787001570 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 359787001571 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 359787001572 active site 359787001573 multimer interface [polypeptide binding]; other site 359787001574 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 359787001575 predicted active site [active] 359787001576 catalytic triad [active] 359787001577 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 359787001578 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 359787001579 Nucleoside recognition; Region: Gate; cl00486 359787001580 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 359787001581 Firmicute transcriptional repressor of class III stress genes (CtsR); Region: CtsR; cl01850 359787001582 Modulator of heat shock repressor CtsR, McsA [Signal transduction mechanisms]; Region: COG3880 359787001583 UvrB/uvrC motif; Region: UVR; pfam02151 359787001584 ATP:guanido phosphotransferase; Provisional; Region: PRK01059 359787001585 Phosphagen (guanidino) kinases found in bacteria; Region: bacterial_phosphagen_kinase; cd07930 359787001586 ADP binding site [chemical binding]; other site 359787001587 phosphagen binding site; other site 359787001588 substrate specificity loop; other site 359787001589 Clp protease ATP binding subunit; Region: clpC; CHL00095 359787001590 Clp amino terminal domain; Region: Clp_N; pfam02861 359787001591 Clp amino terminal domain; Region: Clp_N; pfam02861 359787001592 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 359787001593 Walker A motif; other site 359787001594 ATP binding site [chemical binding]; other site 359787001595 Walker B motif; other site 359787001596 arginine finger; other site 359787001597 UvrB/uvrC motif; Region: UVR; pfam02151 359787001598 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 359787001599 Walker A motif; other site 359787001600 ATP binding site [chemical binding]; other site 359787001601 Walker B motif; other site 359787001602 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 359787001603 DNA repair protein RadA; Provisional; Region: PRK11823 359787001604 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 359787001605 Walker A motif/ATP binding site; other site 359787001606 ATP binding site [chemical binding]; other site 359787001607 Walker B motif; other site 359787001608 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 359787001609 Integral membrane protein (PIN domain superfamily) [General function prediction only]; Region: COG4956 359787001610 PIN domain of Thermus Thermophilus Hb8, uncharacterized Bacillus subtilis YacL, and other bacterial homologs; Region: PIN_YacL; cd09877 359787001611 putative active site [active] 359787001612 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 359787001613 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 359787001614 active site 359787001615 HIGH motif; other site 359787001616 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 359787001617 active site 359787001618 KMSKS motif; other site 359787001619 serine O-acetyltransferase; Region: cysE; TIGR01172 359787001620 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 359787001621 trimer interface [polypeptide binding]; other site 359787001622 active site 359787001623 substrate binding site [chemical binding]; other site 359787001624 CoA binding site [chemical binding]; other site 359787001625 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 359787001626 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 359787001627 active site 359787001628 HIGH motif; other site 359787001629 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 359787001630 KMSKS motif; other site 359787001631 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 359787001632 tRNA binding surface [nucleotide binding]; other site 359787001633 anticodon binding site; other site 359787001634 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 359787001635 active site 359787001636 dimerization interface [polypeptide binding]; other site 359787001637 metal binding site [ion binding]; metal-binding site 359787001638 rRNA methylase, putative, group 3; Region: rRNA_methyl_3; TIGR00186 359787001639 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 359787001640 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 359787001641 YacP-like NYN domain; Region: NYN_YacP; cl01491 359787001642 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 359787001643 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 359787001644 Helix-turn-helix domains; Region: HTH; cl00088 359787001645 DNA binding residues [nucleotide binding] 359787001646 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 359787001647 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 359787001648 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 359787001649 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 359787001650 putative homodimer interface [polypeptide binding]; other site 359787001651 KOW motif; Region: KOW; cl00354 359787001652 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 359787001653 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 359787001654 23S rRNA interface [nucleotide binding]; other site 359787001655 L7/L12 interface [polypeptide binding]; other site 359787001656 putative thiostrepton binding site; other site 359787001657 L25 interface [polypeptide binding]; other site 359787001658 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 359787001659 mRNA/rRNA interface [nucleotide binding]; other site 359787001660 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 359787001661 23S rRNA interface [nucleotide binding]; other site 359787001662 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 359787001663 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 359787001664 peripheral dimer interface [polypeptide binding]; other site 359787001665 core dimer interface [polypeptide binding]; other site 359787001666 L10 interface [polypeptide binding]; other site 359787001667 L11 interface [polypeptide binding]; other site 359787001668 putative EF-Tu interaction site [polypeptide binding]; other site 359787001669 putative EF-G interaction site [polypeptide binding]; other site 359787001670 Methyltransferase domain; Region: Methyltransf_31; pfam13847 359787001671 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 359787001672 S-adenosylmethionine binding site [chemical binding]; other site 359787001673 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 359787001674 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 359787001675 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 359787001676 RNA polymerase beta subunit external 1 domain; Region: RNA_pol_Rpb2_45; pfam10385 359787001677 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 359787001678 RPB12 interaction site [polypeptide binding]; other site 359787001679 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 359787001680 RPB10 interaction site [polypeptide binding]; other site 359787001681 RPB1 interaction site [polypeptide binding]; other site 359787001682 RPB11 interaction site [polypeptide binding]; other site 359787001683 RPB3 interaction site [polypeptide binding]; other site 359787001684 RPB12 interaction site [polypeptide binding]; other site 359787001685 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 359787001686 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 359787001687 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 359787001688 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 359787001689 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 359787001690 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 359787001691 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 359787001692 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 359787001693 G-loop; other site 359787001694 DNA binding site [nucleotide binding] 359787001695 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 359787001696 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 359787001697 S17 interaction site [polypeptide binding]; other site 359787001698 S8 interaction site; other site 359787001699 16S rRNA interaction site [nucleotide binding]; other site 359787001700 streptomycin interaction site [chemical binding]; other site 359787001701 23S rRNA interaction site [nucleotide binding]; other site 359787001702 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 359787001703 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 359787001704 elongation factor G; Reviewed; Region: PRK00007 359787001705 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 359787001706 G1 box; other site 359787001707 putative GEF interaction site [polypeptide binding]; other site 359787001708 GTP/Mg2+ binding site [chemical binding]; other site 359787001709 Switch I region; other site 359787001710 G2 box; other site 359787001711 G3 box; other site 359787001712 Switch II region; other site 359787001713 G4 box; other site 359787001714 G5 box; other site 359787001715 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 359787001716 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 359787001717 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 359787001718 elongation factor Tu; Reviewed; Region: PRK00049 359787001719 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 359787001720 G1 box; other site 359787001721 GEF interaction site [polypeptide binding]; other site 359787001722 GTP/Mg2+ binding site [chemical binding]; other site 359787001723 Switch I region; other site 359787001724 G2 box; other site 359787001725 G3 box; other site 359787001726 Switch II region; other site 359787001727 G4 box; other site 359787001728 G5 box; other site 359787001729 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 359787001730 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 359787001731 Antibiotic Binding Site [chemical binding]; other site 359787001732 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 359787001733 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 359787001734 metal binding site [ion binding]; metal-binding site 359787001735 dimer interface [polypeptide binding]; other site 359787001736 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 359787001737 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 359787001738 substrate-cofactor binding pocket; other site 359787001739 pyridoxal 5'-phosphate binding site [chemical binding]; other site 359787001740 catalytic residue [active] 359787001741 chaperone protein HchA; Provisional; Region: PRK04155 359787001742 Type 1 glutamine amidotransferase (GATase1)-like domain found in Escherichia coli Hsp31 protein (EcHsp31); Region: GATase1_EcHsp31_like; cd03148 359787001743 dimer interface [polypeptide binding]; other site 359787001744 metal binding site [ion binding]; metal-binding site 359787001745 potential oxyanion hole; other site 359787001746 potential catalytic triad [active] 359787001747 conserved cys residue [active] 359787001748 ribulokinase; Provisional; Region: PRK04123 359787001749 Ribulokinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_RBK; cd07781 359787001750 putative N- and C-terminal domain interface [polypeptide binding]; other site 359787001751 putative active site [active] 359787001752 putative MgATP binding site [chemical binding]; other site 359787001753 catalytic site [active] 359787001754 metal binding site [ion binding]; metal-binding site 359787001755 carbohydrate binding site [chemical binding]; other site 359787001756 homodimer interface [polypeptide binding]; other site 359787001757 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 359787001758 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787001759 NAD(P) binding site [chemical binding]; other site 359787001760 active site 359787001761 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 359787001762 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 359787001763 homodimer interface [polypeptide binding]; other site 359787001764 substrate-cofactor binding pocket; other site 359787001765 catalytic residue [active] 359787001766 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 359787001767 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 359787001768 motif II; other site 359787001769 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 359787001770 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 359787001771 Substrate-binding site [chemical binding]; other site 359787001772 Substrate specificity [chemical binding]; other site 359787001773 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 359787001774 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 359787001775 Substrate-binding site [chemical binding]; other site 359787001776 Substrate specificity [chemical binding]; other site 359787001777 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 359787001778 nucleoside/Zn binding site; other site 359787001779 dimer interface [polypeptide binding]; other site 359787001780 catalytic motif [active] 359787001781 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 359787001782 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 359787001783 active site 359787001784 motif I; other site 359787001785 motif II; other site 359787001786 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 359787001787 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 359787001788 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 359787001789 C-terminus of bacterial fibrinogen-binding adhesin; Region: SdrG_C_C; pfam10425 359787001790 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 359787001791 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 359787001792 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 359787001793 C-terminus of bacterial fibrinogen-binding adhesin; Region: SdrG_C_C; pfam10425 359787001794 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 359787001795 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 359787001796 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 359787001797 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 359787001798 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 359787001799 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 359787001800 C-terminus of bacterial fibrinogen-binding adhesin; Region: SdrG_C_C; pfam10425 359787001801 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 359787001802 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 359787001803 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 359787001804 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 359787001805 accessory Sec system glycosylation protein GtfA; Region: TIGR02918 359787001806 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 359787001807 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 359787001808 accessory Sec system glycosylation protein GtfA; Region: TIGR02918 359787001809 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 359787001810 Type I GTP cyclohydrolase folE2; Region: GCHY-1; cl00642 359787001811 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 359787001812 Protein of unknown function (DUF1806); Region: DUF1806; pfam08830 359787001813 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 359787001814 active site 359787001815 trimer interface [polypeptide binding]; other site 359787001816 allosteric site; other site 359787001817 active site lid [active] 359787001818 hexamer (dimer of trimers) interface [polypeptide binding]; other site 359787001819 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 359787001820 active site 359787001821 dimer interface [polypeptide binding]; other site 359787001822 magnesium binding site [ion binding]; other site 359787001823 Predicted sugar phosphate isomerase involved in capsule formation [Cell envelope biogenesis, outer membrane]; Region: GutQ; COG0794 359787001824 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 359787001825 tetramer interface [polypeptide binding]; other site 359787001826 active site 359787001827 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 359787001828 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 359787001829 motif II; other site 359787001830 proline/glycine betaine transporter; Provisional; Region: PRK10642 359787001831 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 359787001832 putative substrate translocation pore; other site 359787001833 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 359787001834 AMP-binding enzyme; Region: AMP-binding; cl15778 359787001835 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 359787001836 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 359787001837 dimer interface [polypeptide binding]; other site 359787001838 active site 359787001839 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 359787001840 dimer interface [polypeptide binding]; other site 359787001841 substrate binding site [chemical binding]; other site 359787001842 ATP binding site [chemical binding]; other site 359787001843 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 359787001844 ligand binding site [chemical binding]; other site 359787001845 active site 359787001846 UGI interface [polypeptide binding]; other site 359787001847 catalytic site [active] 359787001848 Protein of unknown function (DUF423); Region: DUF423; cl01008 359787001849 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 359787001850 Spore germination protein; Region: Spore_permease; cl15802 359787001851 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 359787001852 Uncharacterized conserved protein [Function unknown]; Region: COG2966 359787001853 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 359787001854 Chlorite dismutase; Region: Chlor_dismutase; cl01280 359787001855 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 359787001856 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 359787001857 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 359787001858 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 359787001859 mevalonate kinase; Region: mevalon_kin; TIGR00549 359787001860 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 359787001861 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 359787001862 Mevalonate pyrophosphate decarboxylase [Lipid metabolism]; Region: MVD1; COG3407 359787001863 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 359787001864 phosphomevalonate kinase, ERG8-type, Gram-positive branch; Region: Pmev_kin_Gr_pos; TIGR01220 359787001865 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 359787001866 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 359787001867 Protein of unknown function (DUF1450); Region: DUF1450; cl11488 359787001868 pyridine nucleotide-disulfide oxidoreductase; Provisional; Region: PRK07251 359787001869 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787001870 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 359787001871 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 359787001872 Predicted transcriptional regulator [Transcription]; Region: COG1959 359787001873 Helix-turn-helix domains; Region: HTH; cl00088 359787001874 LXG domain of WXG superfamily; Region: LXG; pfam04740 359787001875 Protein of unknown function (DUF443); Region: DUF443; cl04467 359787001876 Protein of unknown function (DUF443); Region: DUF443; cl04467 359787001877 Protein of unknown function (DUF443); Region: DUF443; cl04467 359787001878 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 359787001879 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 359787001880 active site 359787001881 catalytic tetrad [active] 359787001882 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 359787001883 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 359787001884 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 359787001885 Coenzyme A binding pocket [chemical binding]; other site 359787001886 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 359787001887 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 359787001888 Zn2+ binding site [ion binding]; other site 359787001889 Mg2+ binding site [ion binding]; other site 359787001890 YwhD family; Region: YwhD; pfam08741 359787001891 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 359787001892 ethanol-active dehydrogenase/acetaldehyde-active reductase; Provisional; Region: PRK09422 359787001893 NAD binding site [chemical binding]; other site 359787001894 substrate binding site [chemical binding]; other site 359787001895 catalytic Zn binding site [ion binding]; other site 359787001896 tetramer interface [polypeptide binding]; other site 359787001897 structural Zn binding site [ion binding]; other site 359787001898 Domain of unknown function (DUF1934); Region: DUF1934; cl01870 359787001899 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 359787001900 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 359787001901 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 359787001902 active site 359787001903 HIGH motif; other site 359787001904 KMSK motif region; other site 359787001905 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 359787001906 tRNA binding surface [nucleotide binding]; other site 359787001907 anticodon binding site; other site 359787001908 Uncharacterized protein related to Endonuclease III [DNA replication, recombination, and repair]; Region: COG2231 359787001909 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 359787001910 minor groove reading motif; other site 359787001911 helix-hairpin-helix signature motif; other site 359787001912 substrate binding pocket [chemical binding]; other site 359787001913 active site 359787001914 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 359787001915 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 359787001916 putative binding site residues; other site 359787001917 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 359787001918 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 359787001919 ABC-ATPase subunit interface; other site 359787001920 dimer interface [polypeptide binding]; other site 359787001921 putative PBP binding regions; other site 359787001922 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 359787001923 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 359787001924 motif II; other site 359787001925 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 359787001926 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 359787001927 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 359787001928 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 359787001929 Helix-turn-helix domains; Region: HTH; cl00088 359787001930 Protein of unknown function, DUF606; Region: DUF606; cl01273 359787001931 Protein of unknown function, DUF606; Region: DUF606; cl01273 359787001932 Protein of unknown function (DUF2922); Region: DUF2922; pfam11148 359787001933 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 359787001934 DNA binding site [nucleotide binding] 359787001935 Int/Topo IB signature motif; other site 359787001936 active site 359787001937 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12646 359787001938 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 359787001939 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 359787001940 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 359787001941 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 359787001942 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12663 359787001943 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 359787001944 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 359787001945 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 359787001946 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 359787001947 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 359787001948 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 359787001949 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 359787001950 Transposase; Region: DDE_Tnp_ISL3; pfam01610 359787001951 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 359787001952 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 359787001953 metal binding site [ion binding]; metal-binding site 359787001954 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 359787001955 ABC-ATPase subunit interface; other site 359787001956 dimer interface [polypeptide binding]; other site 359787001957 putative PBP binding regions; other site 359787001958 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 359787001959 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 359787001960 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 359787001961 Helix-turn-helix domains; Region: HTH; cl00088 359787001962 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 359787001963 FeoA domain; Region: FeoA; cl00838 359787001964 Peptidase M50B-like; Region: Peptidase_M50B; pfam13398 359787001965 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 359787001966 teichoic acids export protein ATP-binding subunit; Provisional; Region: PRK13546 359787001967 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 359787001968 Walker A/P-loop; other site 359787001969 ATP binding site [chemical binding]; other site 359787001970 Q-loop/lid; other site 359787001971 ABC transporter signature motif; other site 359787001972 Walker B; other site 359787001973 D-loop; other site 359787001974 H-loop/switch region; other site 359787001975 ABC-2 type transporter; Region: ABC2_membrane; cl11417 359787001976 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 359787001977 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 359787001978 active site 359787001979 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 359787001980 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 359787001981 active site 359787001982 nucleotide binding site [chemical binding]; other site 359787001983 HIGH motif; other site 359787001984 KMSKS motif; other site 359787001985 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 359787001986 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 359787001987 Domain of unknown function (DUF1958); Region: DUF1958; pfam09211 359787001988 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 359787001989 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 359787001990 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 359787001991 Walker A/P-loop; other site 359787001992 ATP binding site [chemical binding]; other site 359787001993 Q-loop/lid; other site 359787001994 ABC transporter signature motif; other site 359787001995 Walker B; other site 359787001996 D-loop; other site 359787001997 H-loop/switch region; other site 359787001998 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 359787001999 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 359787002000 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 359787002001 Uncharacterized conserved protein [Function unknown]; Region: COG1284 359787002002 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 359787002003 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 359787002004 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 359787002005 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 359787002006 Walker A/P-loop; other site 359787002007 ATP binding site [chemical binding]; other site 359787002008 Q-loop/lid; other site 359787002009 ABC transporter signature motif; other site 359787002010 Walker B; other site 359787002011 D-loop; other site 359787002012 H-loop/switch region; other site 359787002013 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 359787002014 ABC-ATPase subunit interface; other site 359787002015 dimer interface [polypeptide binding]; other site 359787002016 putative PBP binding regions; other site 359787002017 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 359787002018 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 359787002019 ABC-ATPase subunit interface; other site 359787002020 dimer interface [polypeptide binding]; other site 359787002021 putative PBP binding regions; other site 359787002022 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 359787002023 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 359787002024 DAK2 domain; Region: Dak2; cl03685 359787002025 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 359787002026 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 359787002027 Uncharacterized membrane protein [Function unknown]; Region: COG3949 359787002028 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 359787002029 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 359787002030 substrate binding pocket [chemical binding]; other site 359787002031 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 359787002032 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 359787002033 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 359787002034 Coenzyme A binding pocket [chemical binding]; other site 359787002035 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 359787002036 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787002037 NAD(P) binding site [chemical binding]; other site 359787002038 active site 359787002039 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 359787002040 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 359787002041 active site 359787002042 phosphorylation site [posttranslational modification] 359787002043 intermolecular recognition site; other site 359787002044 dimerization interface [polypeptide binding]; other site 359787002045 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 359787002046 DNA binding site [nucleotide binding] 359787002047 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 359787002048 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 359787002049 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 359787002050 ATP binding site [chemical binding]; other site 359787002051 Mg2+ binding site [ion binding]; other site 359787002052 G-X-G motif; other site 359787002053 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 359787002054 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 359787002055 Walker A/P-loop; other site 359787002056 ATP binding site [chemical binding]; other site 359787002057 Q-loop/lid; other site 359787002058 ABC transporter signature motif; other site 359787002059 Walker B; other site 359787002060 D-loop; other site 359787002061 H-loop/switch region; other site 359787002062 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 359787002063 Transposase; Region: DDE_Tnp_ISL3; pfam01610 359787002064 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 359787002065 Phosphate transporter family; Region: PHO4; cl00396 359787002066 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 359787002067 putative peptidoglycan binding site; other site 359787002068 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 359787002069 putative peptidoglycan binding site; other site 359787002070 NlpC/P60 family; Region: NLPC_P60; cl11438 359787002071 BAX inhibitor (BI)-1/YccA-like protein family; Region: BI-1-like; cl00473 359787002072 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 359787002073 Helix-turn-helix domains; Region: HTH; cl00088 359787002074 Transcriptional regulator; Region: Transcrip_reg; cl00361 359787002075 Cupin superfamily (DUF985); Region: Cupin_5; cl01418 359787002076 Protein of unknown function (DUF402); Region: DUF402; cl00979 359787002077 Transcriptional regulator [Transcription]; Region: LysR; COG0583 359787002078 Helix-turn-helix domains; Region: HTH; cl00088 359787002079 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 359787002080 dimerization interface [polypeptide binding]; other site 359787002081 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 359787002082 sugar efflux transporter; Region: 2A0120; TIGR00899 359787002083 putative substrate translocation pore; other site 359787002084 Serine incorporator (Serinc); Region: Serinc; pfam03348 359787002085 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 359787002086 Coenzyme A binding pocket [chemical binding]; other site 359787002087 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 359787002088 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 359787002089 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 359787002090 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; cl00727 359787002091 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 359787002092 Bacitracin resistance protein BacA; Region: BacA; cl00858 359787002093 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 359787002094 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 359787002095 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 359787002096 Walker A/P-loop; other site 359787002097 ATP binding site [chemical binding]; other site 359787002098 Q-loop/lid; other site 359787002099 ABC transporter signature motif; other site 359787002100 Walker B; other site 359787002101 D-loop; other site 359787002102 H-loop/switch region; other site 359787002103 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 359787002104 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 359787002105 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 359787002106 Walker A/P-loop; other site 359787002107 ATP binding site [chemical binding]; other site 359787002108 Q-loop/lid; other site 359787002109 ABC transporter signature motif; other site 359787002110 Walker B; other site 359787002111 D-loop; other site 359787002112 H-loop/switch region; other site 359787002113 Transcriptional regulators [Transcription]; Region: MarR; COG1846 359787002114 Helix-turn-helix domains; Region: HTH; cl00088 359787002115 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 359787002116 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 359787002117 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 359787002118 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 359787002119 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 359787002120 active site 359787002121 catalytic tetrad [active] 359787002122 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 359787002123 transmembrane helices; other site 359787002124 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 359787002125 DNA photolyase; Region: DNA_photolyase; pfam00875 359787002126 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 359787002127 Protein of unknown function (DUF1361); Region: DUF1361; cl01784 359787002128 Domain of unknown function (DUF296); Region: DUF296; cl00720 359787002129 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 359787002130 putative substrate translocation pore; other site 359787002131 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 359787002132 putative deacylase active site [active] 359787002133 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 359787002134 Helix-turn-helix domains; Region: HTH; cl00088 359787002135 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 359787002136 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 359787002137 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 359787002138 putative substrate binding site [chemical binding]; other site 359787002139 putative ATP binding site [chemical binding]; other site 359787002140 PTS system 2-O-a-mannosyl-D-glycerate specific transporter subunit IIABC; Provisional; Region: PRK09765 359787002141 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 359787002142 active site 359787002143 phosphorylation site [posttranslational modification] 359787002144 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 359787002145 P-loop; other site 359787002146 active site 359787002147 phosphorylation site [posttranslational modification] 359787002148 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 359787002149 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 359787002150 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 359787002151 active site 359787002152 dimer interface [polypeptide binding]; other site 359787002153 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 359787002154 Domain of unknown function DUF21; Region: DUF21; pfam01595 359787002155 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 359787002156 Transporter associated domain; Region: CorC_HlyC; cl08393 359787002157 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 359787002158 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 359787002159 active site 359787002160 catalytic tetrad [active] 359787002161 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 359787002162 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 359787002163 Ligand binding site; other site 359787002164 Putative Catalytic site; other site 359787002165 DXD motif; other site 359787002166 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 359787002167 dimer interface [polypeptide binding]; other site 359787002168 phosphorylation site [posttranslational modification] 359787002169 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 359787002170 ATP binding site [chemical binding]; other site 359787002171 Mg2+ binding site [ion binding]; other site 359787002172 G-X-G motif; other site 359787002173 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 359787002174 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 359787002175 active site 359787002176 phosphorylation site [posttranslational modification] 359787002177 intermolecular recognition site; other site 359787002178 dimerization interface [polypeptide binding]; other site 359787002179 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 359787002180 DNA binding site [nucleotide binding] 359787002181 DoxX; Region: DoxX; cl00976 359787002182 Electron transfer DM13; Region: DM13; cl02735 359787002183 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE; Region: Bsubt_queE; TIGR03365 359787002184 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 359787002185 active site 359787002186 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 359787002187 Ligand Binding Site [chemical binding]; other site 359787002188 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 359787002189 Glutamine amidotransferase class-I; Region: GATase; pfam00117 359787002190 glutamine binding [chemical binding]; other site 359787002191 catalytic triad [active] 359787002192 aminodeoxychorismate synthase; Provisional; Region: PRK07508 359787002193 chorismate binding enzyme; Region: Chorismate_bind; cl10555 359787002194 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 359787002195 substrate-cofactor binding pocket; other site 359787002196 pyridoxal 5'-phosphate binding site [chemical binding]; other site 359787002197 catalytic residue [active] 359787002198 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 359787002199 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 359787002200 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 359787002201 Phosphoglycerol transferase and related proteins, alkaline phosphatase superfamily [Cell envelope biogenesis, outer membrane]; Region: MdoB; COG1368 359787002202 Sulfatase; Region: Sulfatase; cl10460 359787002203 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 359787002204 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 359787002205 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 359787002206 ABC transporter; Region: ABC_tran_2; pfam12848 359787002207 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 359787002208 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 359787002209 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 359787002210 ATP binding site [chemical binding]; other site 359787002211 putative Mg++ binding site [ion binding]; other site 359787002212 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 359787002213 nucleotide binding region [chemical binding]; other site 359787002214 ATP-binding site [chemical binding]; other site 359787002215 RQC domain; Region: RQC; cl09632 359787002216 HRDC domain; Region: HRDC; cl02578 359787002217 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 359787002218 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 359787002219 Walker A/P-loop; other site 359787002220 ATP binding site [chemical binding]; other site 359787002221 Q-loop/lid; other site 359787002222 ABC transporter signature motif; other site 359787002223 Walker B; other site 359787002224 D-loop; other site 359787002225 H-loop/switch region; other site 359787002226 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 359787002227 dimer interface [polypeptide binding]; other site 359787002228 conserved gate region; other site 359787002229 ABC-ATPase subunit interface; other site 359787002230 NMT1-like family; Region: NMT1_2; cl15260 359787002231 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 359787002232 histidinol-phosphate aminotransferase; Validated; Region: PRK02731 359787002233 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 359787002234 pyridoxal 5'-phosphate binding site [chemical binding]; other site 359787002235 homodimer interface [polypeptide binding]; other site 359787002236 catalytic residue [active] 359787002237 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 359787002238 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 359787002239 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 359787002240 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 359787002241 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 359787002242 putative substrate translocation pore; other site 359787002243 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 359787002244 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 359787002245 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 359787002246 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07632 359787002247 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 359787002248 Class I ribonucleotide reductase; Region: RNR_I; cd01679 359787002249 active site 359787002250 dimer interface [polypeptide binding]; other site 359787002251 catalytic residues [active] 359787002252 effector binding site; other site 359787002253 R2 peptide binding site; other site 359787002254 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 359787002255 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 359787002256 dimer interface [polypeptide binding]; other site 359787002257 putative radical transfer pathway; other site 359787002258 diiron center [ion binding]; other site 359787002259 tyrosyl radical; other site 359787002260 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 359787002261 ABC-ATPase subunit interface; other site 359787002262 dimer interface [polypeptide binding]; other site 359787002263 putative PBP binding regions; other site 359787002264 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 359787002265 ABC-ATPase subunit interface; other site 359787002266 dimer interface [polypeptide binding]; other site 359787002267 putative PBP binding regions; other site 359787002268 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 359787002269 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 359787002270 Walker A/P-loop; other site 359787002271 ATP binding site [chemical binding]; other site 359787002272 Q-loop/lid; other site 359787002273 ABC transporter signature motif; other site 359787002274 Walker B; other site 359787002275 D-loop; other site 359787002276 H-loop/switch region; other site 359787002277 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 359787002278 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 359787002279 putative ligand binding residues [chemical binding]; other site 359787002280 Zinc finger domain containing protein (CHY type) [Function unknown]; Region: COG4357 359787002281 CHY zinc finger; Region: zf-CHY; pfam05495 359787002282 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13906 359787002283 FAD binding domain; Region: FAD_binding_4; pfam01565 359787002284 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 359787002285 Uncharacterized protein family (UPF0157); Region: UPF0157; cl00987 359787002286 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 359787002287 Glycerate kinase family; Region: Gly_kinase; cl00841 359787002288 peptidase T; Region: peptidase-T; TIGR01882 359787002289 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 359787002290 metal binding site [ion binding]; metal-binding site 359787002291 dimer interface [polypeptide binding]; other site 359787002292 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 359787002293 Uncharacterized conserved protein [Function unknown]; Region: COG2966 359787002294 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 359787002295 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 359787002296 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 359787002297 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 359787002298 metal binding site [ion binding]; metal-binding site 359787002299 active site 359787002300 I-site; other site 359787002301 phospho-N-acetylmuramoyl-pentapeptide-transferase; Region: mraY; TIGR00445 359787002302 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 359787002303 Mg++ binding site [ion binding]; other site 359787002304 putative catalytic motif [active] 359787002305 substrate binding site [chemical binding]; other site 359787002306 Uncharacterized conserved protein [Function unknown]; Region: COG1739 359787002307 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 359787002308 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 359787002309 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 359787002310 DEAD-like helicases superfamily; Region: DEXDc; smart00487 359787002311 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 359787002312 ATP binding site [chemical binding]; other site 359787002313 putative Mg++ binding site [ion binding]; other site 359787002314 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 359787002315 nucleotide binding region [chemical binding]; other site 359787002316 ATP-binding site [chemical binding]; other site 359787002317 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 359787002318 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 359787002319 active site 359787002320 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 359787002321 30S subunit binding site; other site 359787002322 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 359787002323 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 359787002324 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 359787002325 nucleotide binding region [chemical binding]; other site 359787002326 ATP-binding site [chemical binding]; other site 359787002327 SEC-C motif; Region: SEC-C; pfam02810 359787002328 peptide chain release factor 2; Validated; Region: prfB; PRK00578 359787002329 RF-1 domain; Region: RF-1; cl02875 359787002330 RF-1 domain; Region: RF-1; cl02875 359787002331 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 359787002332 putative peptidoglycan binding site; other site 359787002333 NlpC/P60 family; Region: NLPC_P60; cl11438 359787002334 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 359787002335 Uncharacterized protein conserved in bacteria (DUF2198); Region: DUF2198; cl11559 359787002336 excinuclease ABC subunit B; Provisional; Region: PRK05298 359787002337 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 359787002338 ATP binding site [chemical binding]; other site 359787002339 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 359787002340 nucleotide binding region [chemical binding]; other site 359787002341 ATP-binding site [chemical binding]; other site 359787002342 Ultra-violet resistance protein B; Region: UvrB; pfam12344 359787002343 UvrB/uvrC motif; Region: UVR; pfam02151 359787002344 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 359787002345 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 359787002346 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 359787002347 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 359787002348 HPr kinase/phosphorylase; Provisional; Region: PRK05428 359787002349 DRTGG domain; Region: DRTGG; cl12147 359787002350 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 359787002351 Hpr binding site; other site 359787002352 active site 359787002353 homohexamer subunit interaction site [polypeptide binding]; other site 359787002354 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 359787002355 putative acyl transferase; Provisional; Region: PRK10191 359787002356 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 359787002357 trimer interface [polypeptide binding]; other site 359787002358 active site 359787002359 substrate binding site [chemical binding]; other site 359787002360 CoA binding site [chemical binding]; other site 359787002361 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 359787002362 binding surface 359787002363 TPR motif; other site 359787002364 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 359787002365 TPR motif; other site 359787002366 binding surface 359787002367 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787002368 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 359787002369 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 359787002370 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 359787002371 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 359787002372 Family of CofD-like proteins and proteins related to YvcK; Region: CofD_YvcK; cd07044 359787002373 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 359787002374 phosphate binding site [ion binding]; other site 359787002375 dimer interface [polypeptide binding]; other site 359787002376 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 359787002377 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 359787002378 Clp protease; Region: CLP_protease; pfam00574 359787002379 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 359787002380 oligomer interface [polypeptide binding]; other site 359787002381 active site residues [active] 359787002382 TIGR01777 family protein; Region: yfcH 359787002383 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787002384 NAD(P) binding site [chemical binding]; other site 359787002385 active site 359787002386 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 359787002387 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 359787002388 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787002389 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 359787002390 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 359787002391 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 359787002392 Phosphoglycerate kinase; Region: PGK; pfam00162 359787002393 substrate binding site [chemical binding]; other site 359787002394 hinge regions; other site 359787002395 ADP binding site [chemical binding]; other site 359787002396 catalytic site [active] 359787002397 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 359787002398 substrate binding site [chemical binding]; other site 359787002399 dimer interface [polypeptide binding]; other site 359787002400 catalytic triad [active] 359787002401 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 359787002402 Sulfatase; Region: Sulfatase; cl10460 359787002403 enolase; Provisional; Region: eno; PRK00077 359787002404 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 359787002405 dimer interface [polypeptide binding]; other site 359787002406 metal binding site [ion binding]; metal-binding site 359787002407 substrate binding pocket [chemical binding]; other site 359787002408 Preprotein translocase SecG subunit; Region: SecG; cl09123 359787002409 Esterase/lipase [General function prediction only]; Region: COG1647 359787002410 ribonuclease R; Region: RNase_R; TIGR02063 359787002411 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 359787002412 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 359787002413 RNB domain; Region: RNB; pfam00773 359787002414 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 359787002415 RNA binding site [nucleotide binding]; other site 359787002416 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 359787002417 SmpB-tmRNA interface; other site 359787002418 Predicted acetyltransferase [General function prediction only]; Region: COG3153 359787002419 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 359787002420 Coenzyme A binding pocket [chemical binding]; other site 359787002421 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 359787002422 C-terminus of bacterial fibrinogen-binding adhesin; Region: SdrG_C_C; pfam10425 359787002423 Staphylococcus aureus coagulase; Region: Coagulase; pfam08764 359787002424 Staphylococcal nuclease homologues; Region: SNc; smart00318 359787002425 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 359787002426 Catalytic site; other site 359787002427 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 359787002428 DNA-binding site [nucleotide binding]; DNA binding site 359787002429 RNA-binding motif; other site 359787002430 Orthopoxvirus protein of unknown function (DUF830); Region: DUF830; cl13998 359787002431 Protein of unknown function (DUF1250); Region: DUF1250; cl11485 359787002432 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 359787002433 catalytic core [active] 359787002434 LysE type translocator; Region: LysE; cl00565 359787002435 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 359787002436 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 359787002437 OsmC-like protein; Region: OsmC; cl00767 359787002438 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 359787002439 active site 359787002440 3-dehydroquinate dehydratase, type I; Region: aroD; TIGR01093 359787002441 catalytic residue [active] 359787002442 dimer interface [polypeptide binding]; other site 359787002443 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 359787002444 putative FMN binding site [chemical binding]; other site 359787002445 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 359787002446 catalytic residues [active] 359787002447 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 359787002448 ArsC family; Region: ArsC; pfam03960 359787002449 putative ArsC-like catalytic residues; other site 359787002450 putative TRX-like catalytic residues [active] 359787002451 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 359787002452 lipoyl attachment site [posttranslational modification]; other site 359787002453 Domain of unknown function (DUF1963); Region: DUF1963; cl01600 359787002454 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 359787002455 putative active site [active] 359787002456 putative metal binding site [ion binding]; other site 359787002457 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 359787002458 catalytic residues [active] 359787002459 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 359787002460 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 359787002461 Walker A/P-loop; other site 359787002462 ATP binding site [chemical binding]; other site 359787002463 Q-loop/lid; other site 359787002464 ABC transporter signature motif; other site 359787002465 Walker B; other site 359787002466 D-loop; other site 359787002467 H-loop/switch region; other site 359787002468 NIL domain; Region: NIL; cl09633 359787002469 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 359787002470 dimer interface [polypeptide binding]; other site 359787002471 conserved gate region; other site 359787002472 ABC-ATPase subunit interface; other site 359787002473 NMT1-like family; Region: NMT1_2; cl15260 359787002474 CsbD-like; Region: CsbD; cl15799 359787002475 Domain of unknown function (DUF368); Region: DUF368; cl00893 359787002476 FeS assembly ATPase SufC; Region: sufC; TIGR01978 359787002477 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 359787002478 Walker A/P-loop; other site 359787002479 ATP binding site [chemical binding]; other site 359787002480 Q-loop/lid; other site 359787002481 ABC transporter signature motif; other site 359787002482 Walker B; other site 359787002483 D-loop; other site 359787002484 H-loop/switch region; other site 359787002485 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 359787002486 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 359787002487 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 359787002488 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 359787002489 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 359787002490 catalytic residue [active] 359787002491 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 359787002492 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 359787002493 trimerization site [polypeptide binding]; other site 359787002494 active site 359787002495 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 359787002496 FeS assembly protein SufB; Region: sufB; TIGR01980 359787002497 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 359787002498 Int/Topo IB signature motif; other site 359787002499 Short C-terminal domain; Region: SHOCT; cl01373 359787002500 Domain of unknown function (DUF955); Region: DUF955; cl01076 359787002501 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 359787002502 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 359787002503 non-specific DNA binding site [nucleotide binding]; other site 359787002504 salt bridge; other site 359787002505 sequence-specific DNA binding site [nucleotide binding]; other site 359787002506 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 359787002507 BRO family, N-terminal domain; Region: Bro-N; cl10591 359787002508 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 359787002509 Protein of unknown function (DUF1270); Region: DUF1270; pfam06900 359787002510 Hypothetical protein of unknown function (DUF2482); Region: DUF2482; pfam10655 359787002511 Protein of unknown function (DUF1108); Region: DUF1108; pfam06531 359787002512 Hypothetical protein of unknown function (DUF2483); Region: DUF2483; pfam10656 359787002513 Protein of unknown function (DUF1071); Region: DUF1071; pfam06378 359787002514 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 359787002515 dimer interface [polypeptide binding]; other site 359787002516 ssDNA binding site [nucleotide binding]; other site 359787002517 tetramer (dimer of dimers) interface [polypeptide binding]; other site 359787002518 Protein of unknown function (DUF968); Region: DUF968; pfam06147 359787002519 Helix-turn-helix domains; Region: HTH; cl00088 359787002520 Conserved phage C-terminus (Phg_2220_C); Region: Phg_2220_C; cl09752 359787002521 hypothetical protein; Validated; Region: PRK08116 359787002522 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 359787002523 Protein of unknown function (DUF3269); Region: DUF3269; pfam11673 359787002524 Protein of unknown function (DUF1064); Region: DUF1064; pfam06356 359787002525 Protein of unknown function (DUF3113); Region: DUF3113; pfam11310 359787002526 PVL ORF-50-like family; Region: PVL_ORF50; pfam07768 359787002527 Phage Conserved Open Reading Frame 51; Region: Phage_Orf51; pfam06194 359787002528 Protein of unknown function (DUF1024); Region: DUF1024; pfam06260 359787002529 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 359787002530 trimer interface [polypeptide binding]; other site 359787002531 active site 359787002532 Protein of unknown function (DUF1381); Region: DUF1381; pfam07129 359787002533 Transcriptional activator RinB; Region: RinB; pfam06116 359787002534 phage transcriptional activator, RinA family; Region: phage_rinA; TIGR01636 359787002535 phage transcriptional regulator, ArpU family; Region: phage_arpU; TIGR01637 359787002536 Terminase small subunit; Region: Terminase_2; cl01513 359787002537 Phage terminase large subunit; Region: Terminase_3; cl12054 359787002538 Terminase-like family; Region: Terminase_6; pfam03237 359787002539 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 359787002540 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 359787002541 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 359787002542 Domain of unknown function (DUF4355); Region: DUF4355; pfam14265 359787002543 Phage capsid family; Region: Phage_capsid; pfam05065 359787002544 Head-Tail Connector Proteins gp6 and gp15, and similar proteins; Region: gp6_gp15_like; cl12049 359787002545 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 359787002546 Phage major tail protein 2; Region: Phage_tail_2; cl11463 359787002547 Phage protein; Region: DUF3647; cl10335 359787002548 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 359787002549 Cdc37 N terminal kinase binding; Region: CDC37_N; cl03951 359787002550 Phage-related protein [Function unknown]; Region: COG5412 359787002551 membrane protein P6; Region: PHA01399 359787002552 Phage-related protein [Function unknown]; Region: COG5412 359787002553 hypothetical protein; Region: PHA01795 359787002554 Phage tail protein; Region: Sipho_tail; pfam05709 359787002555 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 359787002556 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 359787002557 active site 359787002558 catalytic triad [active] 359787002559 oxyanion hole [active] 359787002560 Domain of unknown function (DUF2479); Region: DUF2479; pfam10651 359787002561 cell division protein MukB; Provisional; Region: mukB; PRK04863 359787002562 Protein of unknown function (DUF2977); Region: DUF2977; pfam11192 359787002563 Phage uncharacterized protein (Phage_XkdX); Region: Phage_XkdX; cl09900 359787002564 Protein of unknown function (DUF2951); Region: DUF2951; pfam11166 359787002565 NlpC/P60 family; Region: NLPC_P60; cl11438 359787002566 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 359787002567 Domain of unknown function (DUF2479); Region: DUF2479; pfam10651 359787002568 Phage tail repeat like; Region: PTR; pfam12789 359787002569 Phage lysis protein, holin; Region: Phage_holin; cl04675 359787002570 NlpC/P60 family; Region: NLPC_P60; cl11438 359787002571 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 359787002572 active site 359787002573 metal binding site [ion binding]; metal-binding site 359787002574 Domain of unknown function DUF21; Region: DUF21; pfam01595 359787002575 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 359787002576 Nitronate monooxygenase; Region: NMO; pfam03060 359787002577 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 359787002578 FMN binding site [chemical binding]; other site 359787002579 substrate binding site [chemical binding]; other site 359787002580 putative catalytic residue [active] 359787002581 Protein of unknown function DUF72; Region: DUF72; cl00777 359787002582 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 359787002583 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 359787002584 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 359787002585 active site 359787002586 metal binding site [ion binding]; metal-binding site 359787002587 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 359787002588 lipoyl synthase; Provisional; Region: PRK05481 359787002589 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 359787002590 FeS/SAM binding site; other site 359787002591 Protein of unknown function (DUF1027); Region: DUF1027; cl09961 359787002592 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 359787002593 Transposase; Region: DDE_Tnp_ISL3; pfam01610 359787002594 Protein of unknown function (DUF3055); Region: DUF3055; pfam11256 359787002595 Protein of unknown function DUF86; Region: DUF86; cl01031 359787002596 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 359787002597 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 359787002598 active site 359787002599 motif I; other site 359787002600 motif II; other site 359787002601 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 359787002602 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 359787002603 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787002604 D-Ala-teichoic acid biosynthesis protein; Region: DUF3687; pfam12459 359787002605 D-alanine--poly(phosphoribitol) ligase subunit 1; Provisional; Region: PRK04813 359787002606 AMP-binding enzyme; Region: AMP-binding; cl15778 359787002607 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 359787002608 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 359787002609 Phosphopantetheine attachment site; Region: PP-binding; cl09936 359787002610 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 359787002611 DltD N-terminal region; Region: DltD_N; pfam04915 359787002612 DltD central region; Region: DltD_M; pfam04918 359787002613 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 359787002614 NifU-like domain; Region: NifU; cl00484 359787002615 Protein of unknown function (DUF1462); Region: DUF1462; cl11552 359787002616 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 359787002617 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 359787002618 Protein of unknown function (DUF1450); Region: DUF1450; cl11488 359787002619 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 359787002620 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 359787002621 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 359787002622 Leucyl aminopeptidase [Amino acid transport and metabolism]; Region: PepB; COG0260 359787002623 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 359787002624 interface (dimer of trimers) [polypeptide binding]; other site 359787002625 Substrate-binding/catalytic site; other site 359787002626 Zn-binding sites [ion binding]; other site 359787002627 Predicted permease [General function prediction only]; Region: COG2056 359787002628 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 359787002629 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 359787002630 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 359787002631 CoenzymeA binding site [chemical binding]; other site 359787002632 subunit interaction site [polypeptide binding]; other site 359787002633 PHB binding site; other site 359787002634 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787002635 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 359787002636 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 359787002637 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 359787002638 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 359787002639 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK07691 359787002640 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 359787002641 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 359787002642 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 359787002643 monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12645 359787002644 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 359787002645 Domain of unknown function (DUF4040); Region: DUF4040; cl00676 359787002646 Kinase associated protein B; Region: KapB; pfam08810 359787002647 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 359787002648 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 359787002649 active site 359787002650 general stress protein 13; Validated; Region: PRK08059 359787002651 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 359787002652 RNA binding site [nucleotide binding]; other site 359787002653 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 359787002654 putative active site [active] 359787002655 putative FMN binding site [chemical binding]; other site 359787002656 putative substrate binding site [chemical binding]; other site 359787002657 putative catalytic residue [active] 359787002658 ornithine--oxo-acid transaminase; Provisional; Region: rocD; PRK04073 359787002659 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 359787002660 inhibitor-cofactor binding pocket; inhibition site 359787002661 pyridoxal 5'-phosphate binding site [chemical binding]; other site 359787002662 catalytic residue [active] 359787002663 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 359787002664 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 359787002665 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 359787002666 NAD(P) binding site [chemical binding]; other site 359787002667 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 359787002668 Glycerophosphodiester phosphodiesterase domain of Staphylococcus aureus and similar proteins; Region: GDPD_SaGlpQ_like; cd08601 359787002669 active site 359787002670 catalytic site [active] 359787002671 metal binding site [ion binding]; metal-binding site 359787002672 argininosuccinate lyase; Provisional; Region: PRK00855 359787002673 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 359787002674 active sites [active] 359787002675 tetramer interface [polypeptide binding]; other site 359787002676 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 359787002677 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 359787002678 ANP binding site [chemical binding]; other site 359787002679 Substrate Binding Site II [chemical binding]; other site 359787002680 Substrate Binding Site I [chemical binding]; other site 359787002681 glucose-6-phosphate isomerase; Provisional; Region: pgi; PRK14097 359787002682 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 359787002683 active site 359787002684 dimer interface [polypeptide binding]; other site 359787002685 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 359787002686 dimer interface [polypeptide binding]; other site 359787002687 active site 359787002688 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 359787002689 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 359787002690 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 359787002691 Catalytic site [active] 359787002692 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 359787002693 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 359787002694 Catalytic site [active] 359787002695 helicase-exonuclease AddAB, AddB subunit; Region: addB_Gpos; TIGR02773 359787002696 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 359787002697 helicase-exonuclease AddAB, AddA subunit, Firmicutes type; Region: addA_Gpos; TIGR02785 359787002698 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 359787002699 Family description; Region: UvrD_C_2; cl15862 359787002700 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 359787002701 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 359787002702 Protein of unknown function (DUF1516); Region: DUF1516; cl11654 359787002703 coenzyme A disulfide reductase; Provisional; Region: PRK13512 359787002704 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 359787002705 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 359787002706 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 359787002707 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 359787002708 active site 359787002709 motif I; other site 359787002710 motif II; other site 359787002711 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 359787002712 Domain of unknown function DUF59; Region: DUF59; cl00941 359787002713 OpgC protein; Region: OpgC_C; cl00792 359787002714 Acyltransferase family; Region: Acyl_transf_3; pfam01757 359787002715 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 359787002716 catalytic triad [active] 359787002717 catalytic triad [active] 359787002718 oxyanion hole [active] 359787002719 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 359787002720 Clp amino terminal domain; Region: Clp_N; pfam02861 359787002721 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 359787002722 Walker A motif; other site 359787002723 ATP binding site [chemical binding]; other site 359787002724 Walker B motif; other site 359787002725 arginine finger; other site 359787002726 Plant ATP synthase F0; Region: YMF19; cl07975 359787002727 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 359787002728 Walker A motif; other site 359787002729 ATP binding site [chemical binding]; other site 359787002730 Walker B motif; other site 359787002731 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 359787002732 Transcriptional regulator [Transcription]; Region: LysR; COG0583 359787002733 Helix-turn-helix domains; Region: HTH; cl00088 359787002734 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 359787002735 dimerization interface [polypeptide binding]; other site 359787002736 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 359787002737 DRE-TIM metallolyase superfamily; Region: DRE_TIM_metallolyase; cl07974 359787002738 active site 359787002739 catalytic residues [active] 359787002740 metal binding site [ion binding]; metal-binding site 359787002741 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 359787002742 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 359787002743 substrate binding site [chemical binding]; other site 359787002744 MAP domain; Region: MAP; pfam03642 359787002745 Protein of unknown function (DUF2929); Region: DUF2929; pfam11151 359787002746 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 359787002747 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 359787002748 dimer interface [polypeptide binding]; other site 359787002749 active site 359787002750 CoA binding pocket [chemical binding]; other site 359787002751 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 359787002752 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 359787002753 dimer interface [polypeptide binding]; other site 359787002754 active site 359787002755 Domain of unknown function (DUF3899); Region: DUF3899; pfam13038 359787002756 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 359787002757 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 359787002758 dimer interface [polypeptide binding]; other site 359787002759 conserved gate region; other site 359787002760 putative PBP binding loops; other site 359787002761 ABC-ATPase subunit interface; other site 359787002762 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 359787002763 dimer interface [polypeptide binding]; other site 359787002764 conserved gate region; other site 359787002765 putative PBP binding loops; other site 359787002766 ABC-ATPase subunit interface; other site 359787002767 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 359787002768 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 359787002769 Walker A/P-loop; other site 359787002770 ATP binding site [chemical binding]; other site 359787002771 Q-loop/lid; other site 359787002772 ABC transporter signature motif; other site 359787002773 Walker B; other site 359787002774 D-loop; other site 359787002775 H-loop/switch region; other site 359787002776 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 359787002777 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 359787002778 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 359787002779 Walker A/P-loop; other site 359787002780 ATP binding site [chemical binding]; other site 359787002781 Q-loop/lid; other site 359787002782 ABC transporter signature motif; other site 359787002783 Walker B; other site 359787002784 D-loop; other site 359787002785 H-loop/switch region; other site 359787002786 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 359787002787 O-Glycosyl hydrolase family 30; Region: Glyco_hydro_30; pfam02055 359787002788 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 359787002789 The substrate-binding component of an ABC-type oligopetide import system contains the type 2 periplasmic binding fold; Region: PBP2_OppA; cd08504 359787002790 peptide binding site [polypeptide binding]; other site 359787002791 The substrate binding component of an ABC-type lactococcal OppA-like transport system contains; Region: PBP2_Lactococcal_OppA_like; cd08510 359787002792 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 359787002793 peptide binding site [polypeptide binding]; other site 359787002794 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 359787002795 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 359787002796 Walker A/P-loop; other site 359787002797 ATP binding site [chemical binding]; other site 359787002798 Q-loop/lid; other site 359787002799 ABC transporter signature motif; other site 359787002800 Walker B; other site 359787002801 D-loop; other site 359787002802 H-loop/switch region; other site 359787002803 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 359787002804 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 359787002805 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 359787002806 Walker A/P-loop; other site 359787002807 ATP binding site [chemical binding]; other site 359787002808 Q-loop/lid; other site 359787002809 ABC transporter signature motif; other site 359787002810 Walker B; other site 359787002811 D-loop; other site 359787002812 H-loop/switch region; other site 359787002813 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 359787002814 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 359787002815 dimer interface [polypeptide binding]; other site 359787002816 conserved gate region; other site 359787002817 putative PBP binding loops; other site 359787002818 ABC-ATPase subunit interface; other site 359787002819 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 359787002820 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 359787002821 dimer interface [polypeptide binding]; other site 359787002822 conserved gate region; other site 359787002823 putative PBP binding loops; other site 359787002824 ABC-ATPase subunit interface; other site 359787002825 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 359787002826 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 359787002827 active site 359787002828 HIGH motif; other site 359787002829 dimer interface [polypeptide binding]; other site 359787002830 KMSKS motif; other site 359787002831 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 359787002832 ArsC family; Region: ArsC; pfam03960 359787002833 putative catalytic residues [active] 359787002834 thiol/disulfide switch; other site 359787002835 Negative regulator of genetic competence (MecA); Region: MecA; cl02022 359787002836 Competence protein CoiA-like family; Region: CoiA; cl11541 359787002837 oligoendopeptidase F; Region: pepF; TIGR00181 359787002838 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_3; cd09608 359787002839 active site 359787002840 Zn binding site [ion binding]; other site 359787002841 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 359787002842 Thioredoxin; Region: Thioredoxin_5; pfam13743 359787002843 catalytic residues [active] 359787002844 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 359787002845 apolar tunnel; other site 359787002846 heme binding site [chemical binding]; other site 359787002847 dimerization interface [polypeptide binding]; other site 359787002848 Uncharacterized subgroup 1 of the CYTH-like superfamily; Region: CYTH-like_Pase_1; cd07762 359787002849 putative active site [active] 359787002850 putative metal binding residues [ion binding]; other site 359787002851 signature motif; other site 359787002852 putative triphosphate binding site [ion binding]; other site 359787002853 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 359787002854 synthetase active site [active] 359787002855 NTP binding site [chemical binding]; other site 359787002856 metal binding site [ion binding]; metal-binding site 359787002857 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 359787002858 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 359787002859 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 359787002860 active site 359787002861 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 359787002862 MgtE intracellular N domain; Region: MgtE_N; cl15244 359787002863 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 359787002864 Divalent cation transporter; Region: MgtE; cl00786 359787002865 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 359787002866 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 359787002867 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 359787002868 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787002869 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 359787002870 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 359787002871 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 359787002872 NAD binding site [chemical binding]; other site 359787002873 homotetramer interface [polypeptide binding]; other site 359787002874 homodimer interface [polypeptide binding]; other site 359787002875 substrate binding site [chemical binding]; other site 359787002876 active site 359787002877 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 359787002878 Domain of unknown function DUF20; Region: UPF0118; pfam01594 359787002879 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 359787002880 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 359787002881 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 359787002882 Putative esterase; Region: Esterase; pfam00756 359787002883 hypothetical protein; Provisional; Region: PRK13679 359787002884 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 359787002885 Major Facilitator Superfamily; Region: MFS_1; pfam07690 359787002886 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 359787002887 putative substrate translocation pore; other site 359787002888 diacylglycerol glucosyltransferase; Provisional; Region: PRK13608 359787002889 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 359787002890 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 359787002891 UDP-N-acetylmuramoylalanyl-D-glutamate--L-lysine ligase; Provisional; Region: PRK14022 359787002892 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 359787002893 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 359787002894 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 359787002895 YueH-like protein; Region: YueH; pfam14166 359787002896 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 359787002897 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 359787002898 G1 box; other site 359787002899 putative GEF interaction site [polypeptide binding]; other site 359787002900 GTP/Mg2+ binding site [chemical binding]; other site 359787002901 Switch I region; other site 359787002902 G2 box; other site 359787002903 G3 box; other site 359787002904 Switch II region; other site 359787002905 G4 box; other site 359787002906 G5 box; other site 359787002907 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 359787002908 Integral membrane protein TerC family; Region: TerC; cl10468 359787002909 Tn1545-related conjugative transposon integrases, site-specific recombinases, DNA breaking-rejoining enzymes, C-terminal catalytic domain. This CD includes bacterial (gram positive) and phage integrases, including those similar to Tn1545, Tn5252, and...; Region: INT_Tn1545_C; cd01199 359787002910 Int/Topo IB signature motif; other site 359787002911 Gas vesicle protein G; Region: GvpG; pfam05120 359787002912 Domain of unknown function (DUF955); Region: DUF955; cl01076 359787002913 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 359787002914 non-specific DNA binding site [nucleotide binding]; other site 359787002915 salt bridge; other site 359787002916 sequence-specific DNA binding site [nucleotide binding]; other site 359787002917 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 359787002918 non-specific DNA binding site [nucleotide binding]; other site 359787002919 salt bridge; other site 359787002920 sequence-specific DNA binding site [nucleotide binding]; other site 359787002921 Phage regulatory protein Rha (Phage_pRha); Region: Phage_pRha; cl10713 359787002922 Protein of unknown function (DUF2829); Region: DUF2829; pfam11195 359787002923 Helix-turn-helix domains; Region: HTH; cl00088 359787002924 Protein of unknown function (DUF1270); Region: DUF1270; pfam06900 359787002925 Predicted transcriptional regulator [Transcription]; Region: COG5340 359787002926 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 359787002927 Protein of unknown function (DUF2815); Region: DUF2815; pfam10991 359787002928 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 359787002929 active site 359787002930 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_A; cd08642 359787002931 active site 359787002932 DNA binding site [nucleotide binding] 359787002933 catalytic site [active] 359787002934 Protein of unknown function (DUF3113); Region: DUF3113; pfam11310 359787002935 PVL ORF-50-like family; Region: PVL_ORF50; pfam07768 359787002936 Protein of unknwon function (DUF3310); Region: DUF3310; pfam11753 359787002937 Phage Conserved Open Reading Frame 51; Region: Phage_Orf51; pfam06194 359787002938 YopX protein; Region: YopX; cl09859 359787002939 Protein of unknown function (DUF1635); Region: DUF1635; pfam07795 359787002940 Protein of unknown function (DUF1024); Region: DUF1024; pfam06260 359787002941 dUTPase; Region: dUTPase_2; pfam08761 359787002942 Protein of unknown function (DUF1381); Region: DUF1381; pfam07129 359787002943 Protein of unknown function (DUF1523); Region: DUF1523; pfam07509 359787002944 Transcriptional activator RinB; Region: RinB; pfam06116 359787002945 Protein of unknown function (DUF1514); Region: DUF1514; pfam07438 359787002946 Virulence-associated protein E; Region: VirE; pfam05272 359787002947 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 359787002948 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 359787002949 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 359787002950 ATP binding site [chemical binding]; other site 359787002951 putative Mg++ binding site [ion binding]; other site 359787002952 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 359787002953 phage transcriptional activator, RinA family; Region: phage_rinA; TIGR01636 359787002954 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 359787002955 Phage terminase, small subunit; Region: Terminase_4; cl01525 359787002956 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 359787002957 Phage Terminase; Region: Terminase_1; pfam03354 359787002958 Phage-related protein [Function unknown]; Region: COG4695; cl01923 359787002959 phage portal protein, HK97 family; Region: portal_HK97; TIGR01537 359787002960 Clp protease; Region: CLP_protease; pfam00574 359787002961 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 359787002962 oligomer interface [polypeptide binding]; other site 359787002963 active site residues [active] 359787002964 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 359787002965 Phage capsid family; Region: Phage_capsid; pfam05065 359787002966 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 359787002967 oligomerization interface [polypeptide binding]; other site 359787002968 phage major tail protein, phi13 family; Region: maj_tail_phi13; TIGR01603 359787002969 Bacterial Ig-like domain (group 2); Region: Big_2; cl02708 359787002970 Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; Region: SPEC; cd00176 359787002971 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 359787002972 linker region; other site 359787002973 phage tail tape measure protein, TP901 family, core region; Region: tape_meas_TP901; TIGR01760 359787002974 hypothetical protein; Provisional; Region: PHA02937 359787002975 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 359787002976 Peptidase family M23; Region: Peptidase_M23; pfam01551 359787002977 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 359787002978 N-acetyl-D-glucosamine binding site [chemical binding]; other site 359787002979 catalytic residue [active] 359787002980 Phage tail protein; Region: Sipho_tail; pfam05709 359787002981 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 359787002982 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 359787002983 hypothetical protein; Provisional; Region: PRK05926 359787002984 Domain of unknown function (DUF2479); Region: DUF2479; pfam10651 359787002985 Protein of unknown function (DUF2977); Region: DUF2977; pfam11192 359787002986 Phage uncharacterized protein (Phage_XkdX); Region: Phage_XkdX; cl09900 359787002987 Protein of unknown function (DUF2951); Region: DUF2951; pfam11166 359787002988 Bacteriophage holin; Region: Phage_holin_1; cl02344 359787002989 NlpC/P60 family; Region: NLPC_P60; cl11438 359787002990 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 359787002991 amidase catalytic site [active] 359787002992 Zn binding residues [ion binding]; other site 359787002993 substrate binding site [chemical binding]; other site 359787002994 Bacterial SH3 domain; Region: SH3_3; cl02551 359787002995 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 359787002996 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 359787002997 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 359787002998 Cation transport protein; Region: TrkH; cl10514 359787002999 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 359787003000 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 359787003001 active site 359787003002 metal binding site [ion binding]; metal-binding site 359787003003 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 359787003004 ComK protein; Region: ComK; cl11560 359787003005 IDEAL domain; Region: IDEAL; cl07452 359787003006 lipoyltransferase and lipoate-protein ligase; Region: lipoyltrans; TIGR00545 359787003007 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 359787003008 Bacterial lipoate protein ligase C-terminus; Region: Lip_prot_lig_C; pfam10437 359787003009 Uncharacterized protein conserved in bacteria (DUF2187); Region: DUF2187; cl11556 359787003010 CAAX protease self-immunity; Region: Abi; cl00558 359787003011 bacteriocin-associated integral membrane (putative immunity) protein; Region: bact_immun_7tm; TIGR01654 359787003012 Protein of unknown function (DUF1430); Region: DUF1430; pfam07242 359787003013 Protein of unknown function (DUF1093); Region: DUF1093; cl02185 359787003014 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 359787003015 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 359787003016 Walker A/P-loop; other site 359787003017 ATP binding site [chemical binding]; other site 359787003018 Q-loop/lid; other site 359787003019 ABC transporter signature motif; other site 359787003020 Walker B; other site 359787003021 D-loop; other site 359787003022 H-loop/switch region; other site 359787003023 DoxX; Region: DoxX; cl00976 359787003024 ABC-type Fe3+-citrate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FecB; COG4594 359787003025 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 359787003026 siderophore binding site; other site 359787003027 TM2 domain; Region: TM2; cl00984 359787003028 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 359787003029 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 359787003030 Coenzyme A binding pocket [chemical binding]; other site 359787003031 UbiA prenyltransferase family; Region: UbiA; cl00337 359787003032 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 359787003033 chorismate binding enzyme; Region: Chorismate_bind; cl10555 359787003034 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase [Coenzyme metabolism]; Region: MenD; COG1165 359787003035 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 359787003036 dimer interface [polypeptide binding]; other site 359787003037 tetramer interface [polypeptide binding]; other site 359787003038 PYR/PP interface [polypeptide binding]; other site 359787003039 TPP binding site [chemical binding]; other site 359787003040 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 359787003041 TPP-binding site; other site 359787003042 2-succinyl-6-hydroxy-2, 4-cyclohexadiene-1-carboxylate synthase; Region: menH_SHCHC; TIGR03695 359787003043 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 359787003044 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 359787003045 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 359787003046 substrate binding site [chemical binding]; other site 359787003047 oxyanion hole (OAH) forming residues; other site 359787003048 trimer interface [polypeptide binding]; other site 359787003049 Staphostatin B; Region: Staphostatin_B; pfam09023 359787003050 Staphopain peptidase C47; Region: Peptidase_C47; pfam05543 359787003051 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 359787003052 aminotransferase A; Validated; Region: PRK07683 359787003053 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 359787003054 pyridoxal 5'-phosphate binding site [chemical binding]; other site 359787003055 homodimer interface [polypeptide binding]; other site 359787003056 catalytic residue [active] 359787003057 OpgC protein; Region: OpgC_C; cl00792 359787003058 Acyltransferase family; Region: Acyl_transf_3; pfam01757 359787003059 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 359787003060 Helix-turn-helix domains; Region: HTH; cl00088 359787003061 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: COG5632 359787003062 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 359787003063 amidase catalytic site [active] 359787003064 Zn binding residues [ion binding]; other site 359787003065 substrate binding site [chemical binding]; other site 359787003066 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: COG5632 359787003067 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 359787003068 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 359787003069 Coenzyme A binding pocket [chemical binding]; other site 359787003070 Protein of unknown function (DUF2538); Region: DUF2538; pfam10804 359787003071 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 359787003072 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 359787003073 Prokaryotic Cytochrome C oxidase subunit IV; Region: COX4_pro; cl01204 359787003074 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 359787003075 Subunit I/III interface [polypeptide binding]; other site 359787003076 Subunit III/IV interface [polypeptide binding]; other site 359787003077 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 359787003078 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 359787003079 D-pathway; other site 359787003080 Putative ubiquinol binding site [chemical binding]; other site 359787003081 Low-spin heme (heme b) binding site [chemical binding]; other site 359787003082 Putative water exit pathway; other site 359787003083 Binuclear center (heme o3/CuB) [ion binding]; other site 359787003084 K-pathway; other site 359787003085 Putative proton exit pathway; other site 359787003086 cytochrome aa3 quinol oxidase, subunit II; Region: QOXA; TIGR01432 359787003087 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 359787003088 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 359787003089 Bacterial Ig-like domain (group 3); Region: Big_3; pfam07523 359787003090 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14175 359787003091 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 359787003092 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 359787003093 homodimer interface [polypeptide binding]; other site 359787003094 NADP binding site [chemical binding]; other site 359787003095 substrate binding site [chemical binding]; other site 359787003096 AIR carboxylase; Region: AIRC; cl00310 359787003097 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787003098 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 359787003099 ATP-grasp domain; Region: ATP-grasp_4; cl03087 359787003100 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 359787003101 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 359787003102 ATP binding site [chemical binding]; other site 359787003103 active site 359787003104 substrate binding site [chemical binding]; other site 359787003105 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 359787003106 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 359787003107 putative active site [active] 359787003108 catalytic triad [active] 359787003109 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 359787003110 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 359787003111 dimerization interface [polypeptide binding]; other site 359787003112 ATP binding site [chemical binding]; other site 359787003113 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 359787003114 dimerization interface [polypeptide binding]; other site 359787003115 ATP binding site [chemical binding]; other site 359787003116 amidophosphoribosyltransferase; Provisional; Region: PRK07272 359787003117 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 359787003118 active site 359787003119 tetramer interface [polypeptide binding]; other site 359787003120 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 359787003121 active site 359787003122 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 359787003123 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 359787003124 dimerization interface [polypeptide binding]; other site 359787003125 putative ATP binding site [chemical binding]; other site 359787003126 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 359787003127 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 359787003128 active site 359787003129 substrate binding site [chemical binding]; other site 359787003130 cosubstrate binding site; other site 359787003131 catalytic site [active] 359787003132 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 359787003133 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 359787003134 purine monophosphate binding site [chemical binding]; other site 359787003135 dimer interface [polypeptide binding]; other site 359787003136 putative catalytic residues [active] 359787003137 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 359787003138 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 359787003139 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 359787003140 phosphoribosylamine--glycine ligase; Provisional; Region: PRK13790 359787003141 ATP-grasp domain; Region: ATP-grasp_4; cl03087 359787003142 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 359787003143 Cobalt transport protein; Region: CbiQ; cl00463 359787003144 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 359787003145 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 359787003146 Walker A/P-loop; other site 359787003147 ATP binding site [chemical binding]; other site 359787003148 Q-loop/lid; other site 359787003149 ABC transporter signature motif; other site 359787003150 Walker B; other site 359787003151 D-loop; other site 359787003152 H-loop/switch region; other site 359787003153 ABC-type transport system involved in cytochrome c biogenesis, ATPase component [Posttranslational modification, protein turnover, chaperones]; Region: CcmA; COG4133 359787003154 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 359787003155 Walker A/P-loop; other site 359787003156 ATP binding site [chemical binding]; other site 359787003157 Q-loop/lid; other site 359787003158 ABC transporter signature motif; other site 359787003159 Walker B; other site 359787003160 D-loop; other site 359787003161 H-loop/switch region; other site 359787003162 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; cl01943 359787003163 Predicted SAM-dependent methyltransferases [General function prediction only]; Region: COG1092 359787003164 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 359787003165 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 359787003166 dimerization domain swap beta strand [polypeptide binding]; other site 359787003167 regulatory protein interface [polypeptide binding]; other site 359787003168 active site 359787003169 regulatory phosphorylation site [posttranslational modification]; other site 359787003170 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 359787003171 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 359787003172 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 359787003173 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 359787003174 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 359787003175 catalytic residues [active] 359787003176 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 359787003177 Cytochrome bd-type quinol oxidase, subunit 2 [Energy production and conversion]; Region: AppB; COG1294 359787003178 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 359787003179 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787003180 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 359787003181 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 359787003182 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 359787003183 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 359787003184 Protein of unknown function (DUF1447); Region: DUF1447; cl11492 359787003185 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 359787003186 active site 359787003187 catalytic residues [active] 359787003188 metal binding site [ion binding]; metal-binding site 359787003189 Putative cell-wall binding lipoprotein; Region: YkyA; pfam10368 359787003190 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 359787003191 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 359787003192 TPP-binding site [chemical binding]; other site 359787003193 tetramer interface [polypeptide binding]; other site 359787003194 heterodimer interface [polypeptide binding]; other site 359787003195 phosphorylation loop region [posttranslational modification] 359787003196 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 359787003197 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 359787003198 alpha subunit interface [polypeptide binding]; other site 359787003199 TPP binding site [chemical binding]; other site 359787003200 heterodimer interface [polypeptide binding]; other site 359787003201 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 359787003202 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 359787003203 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 359787003204 E3 interaction surface; other site 359787003205 lipoyl attachment site [posttranslational modification]; other site 359787003206 e3 binding domain; Region: E3_binding; pfam02817 359787003207 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 359787003208 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 359787003209 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787003210 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 359787003211 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 359787003212 Uncharacterized protein family (UPF0223); Region: UPF0223; cl11484 359787003213 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 359787003214 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 359787003215 non-specific DNA binding site [nucleotide binding]; other site 359787003216 salt bridge; other site 359787003217 sequence-specific DNA binding site [nucleotide binding]; other site 359787003218 Cupin domain; Region: Cupin_2; cl09118 359787003219 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 359787003220 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 359787003221 Walker A/P-loop; other site 359787003222 ATP binding site [chemical binding]; other site 359787003223 Q-loop/lid; other site 359787003224 ABC transporter signature motif; other site 359787003225 Walker B; other site 359787003226 D-loop; other site 359787003227 H-loop/switch region; other site 359787003228 TOBE domain; Region: TOBE_2; cl01440 359787003229 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 359787003230 putative PBP binding loops; other site 359787003231 dimer interface [polypeptide binding]; other site 359787003232 ABC-ATPase subunit interface; other site 359787003233 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 359787003234 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 359787003235 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 359787003236 Protein of unknown function (DUF4064); Region: DUF4064; pfam13273 359787003237 Protein of unknown function (DUF4064); Region: DUF4064; pfam13273 359787003238 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 359787003239 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 359787003240 Protein of unknown function (DUF1054); Region: DUF1054; cl11544 359787003241 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 359787003242 active site 359787003243 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 359787003244 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 359787003245 G1 box; other site 359787003246 putative GEF interaction site [polypeptide binding]; other site 359787003247 GTP/Mg2+ binding site [chemical binding]; other site 359787003248 Switch I region; other site 359787003249 G2 box; other site 359787003250 G3 box; other site 359787003251 Switch II region; other site 359787003252 G4 box; other site 359787003253 G5 box; other site 359787003254 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 359787003255 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 359787003256 Uncharacterized protein conserved in bacteria (DUF2197); Region: DUF2197; cl11558 359787003257 Protein of unknown function (DUF1507); Region: DUF1507; cl11487 359787003258 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 359787003259 pyruvate carboxylase; Reviewed; Region: PRK12999 359787003260 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 359787003261 ATP-grasp domain; Region: ATP-grasp_4; cl03087 359787003262 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 359787003263 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 359787003264 active site 359787003265 catalytic residues [active] 359787003266 metal binding site [ion binding]; metal-binding site 359787003267 homodimer binding site [polypeptide binding]; other site 359787003268 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 359787003269 carboxyltransferase (CT) interaction site; other site 359787003270 biotinylation site [posttranslational modification]; other site 359787003271 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 359787003272 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 359787003273 UbiA prenyltransferase family; Region: UbiA; cl00337 359787003274 Protein of unknown function (DUF420); Region: DUF420; cl00989 359787003275 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 359787003276 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 359787003277 Protein of unknown function (DUF964); Region: DUF964; cl01483 359787003278 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 359787003279 Glycerophosphodiester phosphodiesterase domain of Streptomyces coelicolor cytoplasmic phosphodiesterases UgpQ2 and similar proteins; Region: GDPD_cytoplasmic_ScUgpQ2_like; cd08561 359787003280 putative active site [active] 359787003281 catalytic site [active] 359787003282 putative metal binding site [ion binding]; other site 359787003283 Uncharacterized protein conserved in bacteria (DUF2129); Region: DUF2129; cl11453 359787003284 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 359787003285 S-adenosylmethionine binding site [chemical binding]; other site 359787003286 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 359787003287 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 359787003288 active site 359787003289 (T/H)XGH motif; other site 359787003290 HIGH Nucleotidyl Transferase; Region: HIGH_NTase1; pfam05636 359787003291 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 359787003292 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 359787003293 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 359787003294 heme uptake protein IsdB; Region: IsdB; TIGR03657 359787003295 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 359787003296 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cl02760 359787003297 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 359787003298 heme-binding site [chemical binding]; other site 359787003299 Gram positive anchor; Region: Gram_pos_anchor; cl15427 359787003300 Cell surface protein [Cell envelope biogenesis, outer membrane]; Region: COG5386 359787003301 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 359787003302 heme-binding site [chemical binding]; other site 359787003303 heme uptake protein IsdC; Region: IsdC; TIGR03656 359787003304 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 359787003305 heme-binding site [chemical binding]; other site 359787003306 sortase B signal domain, NPQTN class; Region: srtB_sig_NPQTN; TIGR03068 359787003307 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 359787003308 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 359787003309 intersubunit interface [polypeptide binding]; other site 359787003310 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 359787003311 ABC-ATPase subunit interface; other site 359787003312 dimer interface [polypeptide binding]; other site 359787003313 putative PBP binding regions; other site 359787003314 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 359787003315 active site 359787003316 catalytic site [active] 359787003317 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 359787003318 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 359787003319 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 359787003320 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 359787003321 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 359787003322 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 359787003323 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 359787003324 dimer interface [polypeptide binding]; other site 359787003325 motif 1; other site 359787003326 active site 359787003327 motif 2; other site 359787003328 motif 3; other site 359787003329 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 359787003330 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 359787003331 putative tRNA-binding site [nucleotide binding]; other site 359787003332 B3/4 domain; Region: B3_4; cl11458 359787003333 tRNA synthetase B5 domain; Region: B5; cl08394 359787003334 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 359787003335 dimer interface [polypeptide binding]; other site 359787003336 motif 1; other site 359787003337 motif 3; other site 359787003338 motif 2; other site 359787003339 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 359787003340 ribonuclease HIII; Provisional; Region: PRK00996 359787003341 Domain of unknown function (DUF3378); Region: DUF3378; pfam11858 359787003342 bacterial Ribonuclease HIII-like; Region: RNase_HII_bacteria_HIII_like; cd06590 359787003343 RNA/DNA hybrid binding site [nucleotide binding]; other site 359787003344 active site 359787003345 Cell division protein ZapA; Region: ZapA; cl01146 359787003346 Colicin V production protein; Region: Colicin_V; cl00567 359787003347 hypothetical protein; Provisional; Region: PRK08609 359787003348 Nucleotidyltransferase (NT) domain of family X DNA Polymerases; Region: NT_POLXc; cd00141 359787003349 active site 359787003350 primer binding site [nucleotide binding]; other site 359787003351 NTP binding site [chemical binding]; other site 359787003352 metal binding triad [ion binding]; metal-binding site 359787003353 recombination and DNA strand exchange inhibitor protein; Reviewed; Region: PRK00409 359787003354 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 359787003355 Walker A/P-loop; other site 359787003356 ATP binding site [chemical binding]; other site 359787003357 Q-loop/lid; other site 359787003358 ABC transporter signature motif; other site 359787003359 Walker B; other site 359787003360 D-loop; other site 359787003361 H-loop/switch region; other site 359787003362 Smr domain; Region: Smr; cl02619 359787003363 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 359787003364 catalytic residues [active] 359787003365 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 359787003366 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 359787003367 GIY-YIG motif/motif A; other site 359787003368 active site 359787003369 catalytic site [active] 359787003370 putative DNA binding site [nucleotide binding]; other site 359787003371 metal binding site [ion binding]; metal-binding site 359787003372 UvrB/uvrC motif; Region: UVR; pfam02151 359787003373 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 359787003374 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 359787003375 putative Iron-sulfur protein interface [polypeptide binding]; other site 359787003376 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 359787003377 proximal heme binding site [chemical binding]; other site 359787003378 distal heme binding site [chemical binding]; other site 359787003379 putative dimer interface [polypeptide binding]; other site 359787003380 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08641 359787003381 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787003382 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 359787003383 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK08640 359787003384 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 359787003385 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 359787003386 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 359787003387 active site 359787003388 dimerization interface [polypeptide binding]; other site 359787003389 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 359787003390 active site 359787003391 metal binding site [ion binding]; metal-binding site 359787003392 homotetramer interface [polypeptide binding]; other site 359787003393 Extracellular fibrinogen binding protein C terminal; Region: efb-c; pfam12199 359787003394 formyl peptide receptor-like 1 inhibitory protein; Reviewed; Region: PRK13033 359787003395 Extracellular fibrinogen binding protein C terminal; Region: efb-c; pfam12199 359787003396 Staphylococcal complement inhibitor SCIN; Region: CompInhib_SCIN; pfam11546 359787003397 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 359787003398 Transposase; Region: DDE_Tnp_ISL3; pfam01610 359787003399 Leukocidin/Hemolysin toxin family; Region: Leukocidin; cl08468 359787003400 superantigen-like protein; Reviewed; Region: PRK13350 359787003401 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 359787003402 superantigen-like protein; Reviewed; Region: PRK13349 359787003403 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 359787003404 superantigen-like protein; Reviewed; Region: PRK13043 359787003405 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 359787003406 ornithine carbamoyltransferase; Provisional; Region: PRK04284 359787003407 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 359787003408 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787003409 carbamate kinase; Reviewed; Region: PRK12686 359787003410 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 359787003411 putative substrate binding site [chemical binding]; other site 359787003412 nucleotide binding site [chemical binding]; other site 359787003413 nucleotide binding site [chemical binding]; other site 359787003414 homodimer interface [polypeptide binding]; other site 359787003415 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 359787003416 C4-dicarboxylate transporters of the Tellurite-resistance/Dicarboxylate Transporter (TDT) family; Region: TDT_C4-dicarb_trans; cd09325 359787003417 gating phenylalanine in ion channel; other site 359787003418 Staphylococcus haemolytic protein; Region: Staph_haemo; pfam05480 359787003419 Staphylococcus haemolytic protein; Region: Staph_haemo; pfam05480 359787003420 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 359787003421 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 359787003422 motif II; other site 359787003423 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 359787003424 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4365 359787003425 bacillithiol biosynthesis cysteine-adding enzyme BshC; Region: thiol_BshC; TIGR03998 359787003426 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2001 359787003427 MraZ protein; Region: MraZ; pfam02381 359787003428 MraZ protein; Region: MraZ; pfam02381 359787003429 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 359787003430 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787003431 Septum formation initiator; Region: DivIC; cl11433 359787003432 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 359787003433 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 359787003434 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 359787003435 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 359787003436 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 359787003437 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 359787003438 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 359787003439 Mg++ binding site [ion binding]; other site 359787003440 putative catalytic motif [active] 359787003441 putative substrate binding site [chemical binding]; other site 359787003442 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 359787003443 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787003444 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 359787003445 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 359787003446 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 359787003447 Cell division protein FtsQ; Region: FtsQ; pfam03799 359787003448 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 359787003449 Cell division protein FtsA; Region: FtsA; cl11496 359787003450 Cell division protein FtsA; Region: FtsA; cl11496 359787003451 cell division protein FtsZ; Validated; Region: PRK09330 359787003452 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 359787003453 nucleotide binding site [chemical binding]; other site 359787003454 SulA interaction site; other site 359787003455 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 359787003456 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 359787003457 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 359787003458 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 359787003459 catalytic residue [active] 359787003460 Protein of unknown function (DUF552); Region: DUF552; cl00775 359787003461 YGGT family; Region: YGGT; cl00508 359787003462 Uncharacterized conserved protein, contains S4-like domain [Function unknown]; Region: COG2302 359787003463 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 359787003464 RNA binding surface [nucleotide binding]; other site 359787003465 Cell division initiation protein [Cell division and chromosome partitioning]; Region: DivIVA; COG3599 359787003466 DivIVA domain; Region: DivI1A_domain; TIGR03544 359787003467 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 359787003468 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 359787003469 HIGH motif; other site 359787003470 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 359787003471 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 359787003472 active site 359787003473 KMSKS motif; other site 359787003474 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 359787003475 tRNA binding surface [nucleotide binding]; other site 359787003476 anticodon binding site; other site 359787003477 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 359787003478 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 359787003479 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 359787003480 active site 359787003481 metal binding site [ion binding]; metal-binding site 359787003482 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 359787003483 lipoprotein signal peptidase; Provisional; Region: PRK14787 359787003484 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 359787003485 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 359787003486 RNA binding surface [nucleotide binding]; other site 359787003487 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 359787003488 active site 359787003489 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cl00309 359787003490 uracil transporter; Provisional; Region: PRK10720 359787003491 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 359787003492 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 359787003493 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 359787003494 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787003495 dihydroorotase; Validated; Region: pyrC; PRK09357 359787003496 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 359787003497 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 359787003498 active site 359787003499 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 359787003500 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 359787003501 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 359787003502 catalytic site [active] 359787003503 subunit interface [polypeptide binding]; other site 359787003504 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 359787003505 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 359787003506 ATP-grasp domain; Region: ATP-grasp_4; cl03087 359787003507 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 359787003508 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 359787003509 ATP-grasp domain; Region: ATP-grasp_4; cl03087 359787003510 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 359787003511 IMP binding site; other site 359787003512 dimer interface [polypeptide binding]; other site 359787003513 interdomain contacts; other site 359787003514 partial ornithine binding site; other site 359787003515 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 359787003516 active site 359787003517 dimer interface [polypeptide binding]; other site 359787003518 orotate phosphoribosyltransferase; Validated; Region: pyrE; PRK00455 359787003519 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 359787003520 active site 359787003521 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 359787003522 dimer interface [polypeptide binding]; other site 359787003523 Fibronectin-binding protein A N-terminus (FbpA); Region: FbpA; pfam05833 359787003524 Domain of unknown function (DUF814); Region: DUF814; pfam05670 359787003525 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 359787003526 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 359787003527 catalytic site [active] 359787003528 G-X2-G-X-G-K; other site 359787003529 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 359787003530 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 359787003531 Flavoprotein; Region: Flavoprotein; cl08021 359787003532 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 359787003533 primosome assembly protein PriA; Validated; Region: PRK05580 359787003534 primosome assembly protein PriA; Validated; Region: PRK05580 359787003535 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 359787003536 ATP binding site [chemical binding]; other site 359787003537 putative Mg++ binding site [ion binding]; other site 359787003538 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 359787003539 TM2 domain; Region: TM2; cl00984 359787003540 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 359787003541 active site 359787003542 catalytic residues [active] 359787003543 metal binding site [ion binding]; metal-binding site 359787003544 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 359787003545 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 359787003546 putative active site [active] 359787003547 substrate binding site [chemical binding]; other site 359787003548 putative cosubstrate binding site; other site 359787003549 catalytic site [active] 359787003550 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 359787003551 substrate binding site [chemical binding]; other site 359787003552 16S rRNA methyltransferase B; Provisional; Region: PRK14902 359787003553 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 359787003554 putative RNA binding site [nucleotide binding]; other site 359787003555 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 359787003556 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14455 359787003557 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 359787003558 FeS/SAM binding site; other site 359787003559 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 359787003560 Protein phosphatase 2C; Region: PP2C; pfam00481 359787003561 active site 359787003562 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 359787003563 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 359787003564 active site 359787003565 ATP binding site [chemical binding]; other site 359787003566 substrate binding site [chemical binding]; other site 359787003567 activation loop (A-loop); other site 359787003568 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 359787003569 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 359787003570 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 359787003571 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 359787003572 GTPase RsgA; Reviewed; Region: PRK00098 359787003573 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 359787003574 RNA binding site [nucleotide binding]; other site 359787003575 homodimer interface [polypeptide binding]; other site 359787003576 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 359787003577 GTPase/Zn-binding domain interface [polypeptide binding]; other site 359787003578 GTP/Mg2+ binding site [chemical binding]; other site 359787003579 G4 box; other site 359787003580 G5 box; other site 359787003581 G1 box; other site 359787003582 Switch I region; other site 359787003583 G2 box; other site 359787003584 G3 box; other site 359787003585 Switch II region; other site 359787003586 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 359787003587 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 359787003588 substrate binding site [chemical binding]; other site 359787003589 hexamer interface [polypeptide binding]; other site 359787003590 metal binding site [ion binding]; metal-binding site 359787003591 Thiamine pyrophosphokinase [Coenzyme metabolism]; Region: THI80; COG1564 359787003592 Thiamine pyrophosphokinase; Region: TPK; cd07995 359787003593 active site 359787003594 dimerization interface [polypeptide binding]; other site 359787003595 thiamine binding site [chemical binding]; other site 359787003596 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 359787003597 Asp23 family; Region: Asp23; cl00574 359787003598 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 359787003599 DAK2 domain; Region: Dak2; cl03685 359787003600 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 359787003601 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 359787003602 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 359787003603 generic binding surface II; other site 359787003604 ssDNA binding site; other site 359787003605 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 359787003606 ATP binding site [chemical binding]; other site 359787003607 putative Mg++ binding site [ion binding]; other site 359787003608 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 359787003609 nucleotide binding region [chemical binding]; other site 359787003610 ATP-binding site [chemical binding]; other site 359787003611 fatty acid biosynthesis transcriptional regulator; Provisional; Region: PRK04424 359787003612 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 359787003613 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 359787003614 Acyl transferase domain; Region: Acyl_transf_1; cl08282 359787003615 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 359787003616 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 359787003617 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 359787003618 NAD(P) binding site [chemical binding]; other site 359787003619 homotetramer interface [polypeptide binding]; other site 359787003620 homodimer interface [polypeptide binding]; other site 359787003621 active site 359787003622 Phosphopantetheine attachment site; Region: PP-binding; cl09936 359787003623 ribonuclease III; Reviewed; Region: rnc; PRK00102 359787003624 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 359787003625 dimerization interface [polypeptide binding]; other site 359787003626 active site 359787003627 metal binding site [ion binding]; metal-binding site 359787003628 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 359787003629 dsRNA binding site [nucleotide binding]; other site 359787003630 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 359787003631 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 359787003632 Walker A/P-loop; other site 359787003633 ATP binding site [chemical binding]; other site 359787003634 Q-loop/lid; other site 359787003635 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 359787003636 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; cl05797 359787003637 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 359787003638 ABC transporter signature motif; other site 359787003639 Walker B; other site 359787003640 D-loop; other site 359787003641 H-loop/switch region; other site 359787003642 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 359787003643 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 359787003644 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 359787003645 P loop; other site 359787003646 GTP binding site [chemical binding]; other site 359787003647 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 359787003648 Putative helix-turn-helix protein, YlxM / p13 like; Region: UPF0122; pfam04297 359787003649 signal recognition particle protein; Provisional; Region: PRK10867 359787003650 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 359787003651 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 359787003652 P loop; other site 359787003653 GTP binding site [chemical binding]; other site 359787003654 Signal peptide binding domain; Region: SRP_SPB; pfam02978 359787003655 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 359787003656 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 359787003657 RimM N-terminal domain; Region: RimM; pfam01782 359787003658 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 359787003659 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 359787003660 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 359787003661 Predicted membrane protein [Function unknown]; Region: COG4485 359787003662 GTPase YlqF; Reviewed; Region: rbgA; PRK09563 359787003663 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 359787003664 GTP/Mg2+ binding site [chemical binding]; other site 359787003665 G4 box; other site 359787003666 G5 box; other site 359787003667 G1 box; other site 359787003668 Switch I region; other site 359787003669 G2 box; other site 359787003670 G3 box; other site 359787003671 Switch II region; other site 359787003672 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 359787003673 RNA/DNA hybrid binding site [nucleotide binding]; other site 359787003674 active site 359787003675 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 359787003676 ATP-grasp domain; Region: ATP-grasp_4; cl03087 359787003677 CoA-ligase; Region: Ligase_CoA; cl02894 359787003678 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 359787003679 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787003680 CoA-ligase; Region: Ligase_CoA; cl02894 359787003681 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 359787003682 autolysin; Reviewed; Region: PRK06347 359787003683 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 359787003684 putative peptidoglycan binding site; other site 359787003685 NlpC/P60 family; Region: NLPC_P60; cl11438 359787003686 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 359787003687 DNA topoisomerase I; Validated; Region: PRK05582 359787003688 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 359787003689 active site 359787003690 interdomain interaction site; other site 359787003691 putative metal-binding site [ion binding]; other site 359787003692 nucleotide binding site [chemical binding]; other site 359787003693 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 359787003694 domain I; other site 359787003695 DNA binding groove [nucleotide binding] 359787003696 phosphate binding site [ion binding]; other site 359787003697 domain II; other site 359787003698 domain III; other site 359787003699 nucleotide binding site [chemical binding]; other site 359787003700 catalytic site [active] 359787003701 domain IV; other site 359787003702 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 359787003703 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 359787003704 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 359787003705 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787003706 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 359787003707 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 359787003708 DNA binding site [nucleotide binding] 359787003709 Int/Topo IB signature motif; other site 359787003710 active site 359787003711 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 359787003712 active site 359787003713 HslU subunit interaction site [polypeptide binding]; other site 359787003714 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 359787003715 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 359787003716 Walker A motif; other site 359787003717 ATP binding site [chemical binding]; other site 359787003718 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 359787003719 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 359787003720 transcriptional repressor CodY; Validated; Region: PRK04158 359787003721 CodY GAF-like domain; Region: CodY; pfam06018 359787003722 Helix-turn-helix domains; Region: HTH; cl00088 359787003723 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 359787003724 rRNA interaction site [nucleotide binding]; other site 359787003725 S8 interaction site; other site 359787003726 putative laminin-1 binding site; other site 359787003727 elongation factor Ts; Provisional; Region: tsf; PRK09377 359787003728 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 359787003729 Elongation factor TS; Region: EF_TS; pfam00889 359787003730 Elongation factor TS; Region: EF_TS; pfam00889 359787003731 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 359787003732 putative nucleotide binding site [chemical binding]; other site 359787003733 uridine monophosphate binding site [chemical binding]; other site 359787003734 homohexameric interface [polypeptide binding]; other site 359787003735 ribosome recycling factor; Reviewed; Region: frr; PRK00083 359787003736 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 359787003737 hinge region; other site 359787003738 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 359787003739 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 359787003740 catalytic residue [active] 359787003741 putative FPP diphosphate binding site; other site 359787003742 putative FPP binding hydrophobic cleft; other site 359787003743 dimer interface [polypeptide binding]; other site 359787003744 putative IPP diphosphate binding site; other site 359787003745 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 359787003746 RIP metalloprotease RseP; Region: TIGR00054 359787003747 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 359787003748 active site 359787003749 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 359787003750 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 359787003751 protein binding site [polypeptide binding]; other site 359787003752 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 359787003753 putative substrate binding region [chemical binding]; other site 359787003754 prolyl-tRNA synthetase; Provisional; Region: PRK09194 359787003755 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 359787003756 dimer interface [polypeptide binding]; other site 359787003757 motif 1; other site 359787003758 active site 359787003759 motif 2; other site 359787003760 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 359787003761 putative deacylase active site [active] 359787003762 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 359787003763 active site 359787003764 motif 3; other site 359787003765 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 359787003766 anticodon binding site; other site 359787003767 DNA polymerase III PolC; Validated; Region: polC; PRK00448 359787003768 DNA polymerase III polC-type N-terminus; Region: DNA_pol3_alph_N; pfam11490 359787003769 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 359787003770 generic binding surface II; other site 359787003771 generic binding surface I; other site 359787003772 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 359787003773 active site 359787003774 substrate binding site [chemical binding]; other site 359787003775 catalytic site [active] 359787003776 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 359787003777 ribosome maturation protein RimP; Reviewed; Region: PRK00092 359787003778 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 359787003779 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 359787003780 Sm1 motif; other site 359787003781 predicted subunit interaction site [polypeptide binding]; other site 359787003782 RNA binding pocket [nucleotide binding]; other site 359787003783 Sm2 motif; other site 359787003784 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 359787003785 NusA N-terminal domain; Region: NusA_N; pfam08529 359787003786 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 359787003787 RNA binding site [nucleotide binding]; other site 359787003788 homodimer interface [polypeptide binding]; other site 359787003789 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 359787003790 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 359787003791 G-X-X-G motif; other site 359787003792 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 359787003793 putative RNA binding cleft [nucleotide binding]; other site 359787003794 Ribosomal protein L7Ae/L30e/S12e/Gadd45 family; Region: Ribosomal_L7Ae; cl00600 359787003795 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 359787003796 translation initiation factor IF-2; Region: IF-2; TIGR00487 359787003797 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 359787003798 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 359787003799 G1 box; other site 359787003800 putative GEF interaction site [polypeptide binding]; other site 359787003801 GTP/Mg2+ binding site [chemical binding]; other site 359787003802 Switch I region; other site 359787003803 G2 box; other site 359787003804 G3 box; other site 359787003805 Switch II region; other site 359787003806 G4 box; other site 359787003807 G5 box; other site 359787003808 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 359787003809 Translation-initiation factor 2; Region: IF-2; pfam11987 359787003810 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 359787003811 Ribosome-binding factor A; Region: RBFA; cl00542 359787003812 tRNA pseudouridine synthase B; Provisional; Region: PRK14123 359787003813 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 359787003814 RNA binding site [nucleotide binding]; other site 359787003815 active site 359787003816 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 359787003817 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 359787003818 active site 359787003819 Riboflavin kinase; Region: Flavokinase; cl03312 359787003820 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 359787003821 16S/18S rRNA binding site [nucleotide binding]; other site 359787003822 S13e-L30e interaction site [polypeptide binding]; other site 359787003823 25S rRNA binding site [nucleotide binding]; other site 359787003824 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 359787003825 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 359787003826 RNase E interface [polypeptide binding]; other site 359787003827 trimer interface [polypeptide binding]; other site 359787003828 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 359787003829 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 359787003830 RNase E interface [polypeptide binding]; other site 359787003831 trimer interface [polypeptide binding]; other site 359787003832 active site 359787003833 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 359787003834 putative nucleic acid binding region [nucleotide binding]; other site 359787003835 G-X-X-G motif; other site 359787003836 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 359787003837 RNA binding site [nucleotide binding]; other site 359787003838 domain interface; other site 359787003839 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 359787003840 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 359787003841 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 359787003842 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 359787003843 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 359787003844 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 359787003845 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 359787003846 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 359787003847 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 359787003848 Helix-turn-helix domains; Region: HTH; cl00088 359787003849 UTRA domain; Region: UTRA; cl01230 359787003850 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 359787003851 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 359787003852 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 359787003853 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 359787003854 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 359787003855 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 359787003856 classical (c) SDRs; Region: SDR_c; cd05233 359787003857 NAD(P) binding site [chemical binding]; other site 359787003858 active site 359787003859 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 359787003860 Protein of unknown function (DUF3388); Region: DUF3388; pfam11868 359787003861 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 359787003862 non-specific DNA binding site [nucleotide binding]; other site 359787003863 salt bridge; other site 359787003864 sequence-specific DNA binding site [nucleotide binding]; other site 359787003865 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 359787003866 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 359787003867 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 359787003868 putative MPT binding site; other site 359787003869 recombinase A; Provisional; Region: recA; PRK09354 359787003870 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 359787003871 hexamer interface [polypeptide binding]; other site 359787003872 Walker A motif; other site 359787003873 ATP binding site [chemical binding]; other site 359787003874 Walker B motif; other site 359787003875 phosphodiesterase; Provisional; Region: PRK12704 359787003876 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 359787003877 Deinococcus radiodurans DR1281 and related proteins, metallophosphatase domain; Region: MPP_DR1281; cd07382 359787003878 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 359787003879 putative active site [active] 359787003880 metal binding site [ion binding]; metal-binding site 359787003881 homodimer binding site [polypeptide binding]; other site 359787003882 Pyruvate ferredoxin/flavodoxin oxidoreductase; Region: POR; cl00546 359787003883 2-oxoacid:acceptor oxidoreductase, alpha subunit; Region: OAFO_sf; TIGR03710 359787003884 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 359787003885 dimer interface [polypeptide binding]; other site 359787003886 PYR/PP interface [polypeptide binding]; other site 359787003887 TPP binding site [chemical binding]; other site 359787003888 substrate binding site [chemical binding]; other site 359787003889 2-oxoglutarate ferredoxin oxidoreductase subunit beta; Reviewed; Region: PRK11867 359787003890 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 359787003891 TPP-binding site [chemical binding]; other site 359787003892 Pyruvate ferredoxin oxidoreductase beta subunit C terminal; Region: PFO_beta_C; pfam12367 359787003893 Domain of unknown function DUF77; Region: DUF77; cl00307 359787003894 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14327 359787003895 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 359787003896 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 359787003897 FeS/SAM binding site; other site 359787003898 TRAM domain; Region: TRAM; cl01282 359787003899 Protein of unknown function (DUF964); Region: DUF964; cl01483 359787003900 Thiamine-precursor transporter protein (ThiW); Region: ThiW; cl01952 359787003901 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 359787003902 MutS domain I; Region: MutS_I; pfam01624 359787003903 MutS domain II; Region: MutS_II; pfam05188 359787003904 MutS family domain IV; Region: MutS_IV; pfam05190 359787003905 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 359787003906 Walker A/P-loop; other site 359787003907 ATP binding site [chemical binding]; other site 359787003908 Q-loop/lid; other site 359787003909 ABC transporter signature motif; other site 359787003910 Walker B; other site 359787003911 D-loop; other site 359787003912 H-loop/switch region; other site 359787003913 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 359787003914 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 359787003915 ATP binding site [chemical binding]; other site 359787003916 Mg2+ binding site [ion binding]; other site 359787003917 G-X-G motif; other site 359787003918 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 359787003919 ATP binding site [chemical binding]; other site 359787003920 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 359787003921 Glycerol-3-phosphate responsive antiterminator; Region: G3P_antiterm; cl00852 359787003922 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 359787003923 amphipathic channel; other site 359787003924 Asn-Pro-Ala signature motifs; other site 359787003925 glycerol kinase; Provisional; Region: glpK; PRK00047 359787003926 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 359787003927 N- and C-terminal domain interface [polypeptide binding]; other site 359787003928 active site 359787003929 MgATP binding site [chemical binding]; other site 359787003930 catalytic site [active] 359787003931 metal binding site [ion binding]; metal-binding site 359787003932 glycerol binding site [chemical binding]; other site 359787003933 homotetramer interface [polypeptide binding]; other site 359787003934 homodimer interface [polypeptide binding]; other site 359787003935 FBP binding site [chemical binding]; other site 359787003936 protein IIAGlc interface [polypeptide binding]; other site 359787003937 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 359787003938 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 359787003939 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 359787003940 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 359787003941 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 359787003942 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 359787003943 Sm1 motif; other site 359787003944 intra - hexamer interaction site; other site 359787003945 inter - hexamer interaction site [polypeptide binding]; other site 359787003946 nucleotide binding pocket [chemical binding]; other site 359787003947 Sm2 motif; other site 359787003948 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 359787003949 catalytic residues [active] 359787003950 dimer interface [polypeptide binding]; other site 359787003951 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 359787003952 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 359787003953 HflX GTPase family; Region: HflX; cd01878 359787003954 G1 box; other site 359787003955 GTP/Mg2+ binding site [chemical binding]; other site 359787003956 Switch I region; other site 359787003957 G2 box; other site 359787003958 G3 box; other site 359787003959 Switch II region; other site 359787003960 G4 box; other site 359787003961 G5 box; other site 359787003962 Cystathionine beta-lyase family protein involved in aluminum resistance [Inorganic ion transport and metabolism]; Region: COG4100 359787003963 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 359787003964 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 359787003965 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 359787003966 DNA binding residues [nucleotide binding] 359787003967 putative dimer interface [polypeptide binding]; other site 359787003968 glutamine synthetase, type I; Region: GlnA; TIGR00653 359787003969 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 359787003970 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 359787003971 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 359787003972 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 359787003973 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 359787003974 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 359787003975 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 359787003976 catalytic residue [active] 359787003977 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 359787003978 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 359787003979 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 359787003980 putative active site [active] 359787003981 catalytic site [active] 359787003982 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 359787003983 putative active site [active] 359787003984 catalytic site [active] 359787003985 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 359787003986 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 359787003987 Walker A/P-loop; other site 359787003988 ATP binding site [chemical binding]; other site 359787003989 Q-loop/lid; other site 359787003990 ABC transporter signature motif; other site 359787003991 Walker B; other site 359787003992 D-loop; other site 359787003993 H-loop/switch region; other site 359787003994 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 359787003995 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 359787003996 Histidine kinase; Region: HisKA_3; pfam07730 359787003997 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 359787003998 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 359787003999 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 359787004000 active site 359787004001 phosphorylation site [posttranslational modification] 359787004002 intermolecular recognition site; other site 359787004003 dimerization interface [polypeptide binding]; other site 359787004004 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 359787004005 DNA binding residues [nucleotide binding] 359787004006 dimerization interface [polypeptide binding]; other site 359787004007 Staphylococcal nuclease homologues; Region: SNc; smart00318 359787004008 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 359787004009 Catalytic site; other site 359787004010 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 359787004011 aspartate kinase; Reviewed; Region: PRK09034 359787004012 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 359787004013 putative catalytic residues [active] 359787004014 putative nucleotide binding site [chemical binding]; other site 359787004015 putative aspartate binding site [chemical binding]; other site 359787004016 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 359787004017 allosteric regulatory residue; other site 359787004018 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 359787004019 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 359787004020 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787004021 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 359787004022 threonine synthase; Reviewed; Region: PRK06721 359787004023 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 359787004024 homodimer interface [polypeptide binding]; other site 359787004025 pyridoxal 5'-phosphate binding site [chemical binding]; other site 359787004026 catalytic residue [active] 359787004027 homoserine kinase; Provisional; Region: PRK01212 359787004028 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 359787004029 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 359787004030 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 359787004031 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 359787004032 active site 359787004033 motif I; other site 359787004034 motif II; other site 359787004035 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 359787004036 Amino acid transporters [Amino acid transport and metabolism]; Region: LysP; COG0833 359787004037 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 359787004038 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 359787004039 tetramer interface [polypeptide binding]; other site 359787004040 heme binding pocket [chemical binding]; other site 359787004041 NADPH binding site [chemical binding]; other site 359787004042 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 359787004043 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 359787004044 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 359787004045 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 359787004046 active site 359787004047 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 359787004048 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 359787004049 LexA repressor; Validated; Region: PRK00215 359787004050 Helix-turn-helix domains; Region: HTH; cl00088 359787004051 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 359787004052 Catalytic site [active] 359787004053 Bacterial protein of unknown function (DUF896); Region: DUF896; cl01722 359787004054 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 359787004055 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 359787004056 TPP-binding site [chemical binding]; other site 359787004057 dimer interface [polypeptide binding]; other site 359787004058 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 359787004059 PYR/PP interface [polypeptide binding]; other site 359787004060 dimer interface [polypeptide binding]; other site 359787004061 TPP binding site [chemical binding]; other site 359787004062 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 359787004063 Uncharacterized protein family (UPF0154); Region: UPF0154; cl01536 359787004064 Protein of unknown function (DUF1453); Region: DUF1453; cl02009 359787004065 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 359787004066 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 359787004067 active site 359787004068 metal binding site [ion binding]; metal-binding site 359787004069 DNA binding site [nucleotide binding] 359787004070 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 359787004071 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 359787004072 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 359787004073 Walker A/P-loop; other site 359787004074 ATP binding site [chemical binding]; other site 359787004075 Q-loop/lid; other site 359787004076 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 359787004077 ABC transporter signature motif; other site 359787004078 Walker B; other site 359787004079 D-loop; other site 359787004080 H-loop/switch region; other site 359787004081 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 359787004082 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 359787004083 BCCT family transporter; Region: BCCT; cl00569 359787004084 aconitate hydratase; Validated; Region: PRK09277 359787004085 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 359787004086 substrate binding site [chemical binding]; other site 359787004087 ligand binding site [chemical binding]; other site 359787004088 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 359787004089 substrate binding site [chemical binding]; other site 359787004090 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 359787004091 active site 359787004092 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 359787004093 Glycerol-3-phosphate acyltransferase; Region: G3P_acyltransf; cl00410 359787004094 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 359787004095 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 359787004096 ATP binding site [chemical binding]; other site 359787004097 Mg2+ binding site [ion binding]; other site 359787004098 G-X-G motif; other site 359787004099 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 359787004100 anchoring element; other site 359787004101 dimer interface [polypeptide binding]; other site 359787004102 ATP binding site [chemical binding]; other site 359787004103 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 359787004104 active site 359787004105 putative metal-binding site [ion binding]; other site 359787004106 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 359787004107 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 359787004108 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 359787004109 CAP-like domain; other site 359787004110 active site 359787004111 primary dimer interface [polypeptide binding]; other site 359787004112 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 359787004113 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 359787004114 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 359787004115 CAT RNA binding domain; Region: CAT_RBD; cl03904 359787004116 PRD domain; Region: PRD; cl15445 359787004117 PRD domain; Region: PRD; cl15445 359787004118 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 359787004119 Domain of unknown function DUF20; Region: UPF0118; pfam01594 359787004120 Predicted integral membrane protein [Function unknown]; Region: COG0392 359787004121 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 359787004122 Uncharacterized conserved protein [Function unknown]; Region: COG2898 359787004123 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 359787004124 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 359787004125 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 359787004126 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 359787004127 active site 1 [active] 359787004128 dimer interface [polypeptide binding]; other site 359787004129 hexamer interface [polypeptide binding]; other site 359787004130 active site 2 [active] 359787004131 DNA polymerase IV; Reviewed; Region: PRK03103 359787004132 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 359787004133 active site 359787004134 DNA binding site [nucleotide binding] 359787004135 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 359787004136 prephenate dehydrogenase; Validated; Region: PRK06545 359787004137 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787004138 C-terminal ACT domain of the monofunctional, NAD dependent, prephenate dehydrogenase (PDH); Region: ACT_PDH-BS; cd04909 359787004139 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 359787004140 M42 Peptidase, Endoglucanase-like subfamily; Region: M42_glucanase_like; cd05657 359787004141 putative oligomer interface [polypeptide binding]; other site 359787004142 putative active site [active] 359787004143 metal binding site [ion binding]; metal-binding site 359787004144 anthranilate synthase component I; Provisional; Region: PRK13567 359787004145 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 359787004146 chorismate binding enzyme; Region: Chorismate_bind; cl10555 359787004147 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 359787004148 Glutamine amidotransferase class-I; Region: GATase; pfam00117 359787004149 glutamine binding [chemical binding]; other site 359787004150 catalytic triad [active] 359787004151 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 359787004152 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 359787004153 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 359787004154 active site 359787004155 ribulose/triose binding site [chemical binding]; other site 359787004156 phosphate binding site [ion binding]; other site 359787004157 substrate (anthranilate) binding pocket [chemical binding]; other site 359787004158 product (indole) binding pocket [chemical binding]; other site 359787004159 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 359787004160 active site 359787004161 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 359787004162 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 359787004163 pyridoxal 5'-phosphate binding site [chemical binding]; other site 359787004164 catalytic residue [active] 359787004165 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 359787004166 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 359787004167 substrate binding site [chemical binding]; other site 359787004168 active site 359787004169 catalytic residues [active] 359787004170 heterodimer interface [polypeptide binding]; other site 359787004171 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 359787004172 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 359787004173 Cof subfamily of IIB subfamily of haloacid dehalogenase superfamily; Region: Cof-subfamily; TIGR00099 359787004174 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 359787004175 active site 359787004176 motif I; other site 359787004177 motif II; other site 359787004178 SWIM zinc finger; Region: SWIM; cl15408 359787004179 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 359787004180 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 359787004181 Walker A/P-loop; other site 359787004182 ATP binding site [chemical binding]; other site 359787004183 Q-loop/lid; other site 359787004184 ABC transporter signature motif; other site 359787004185 Walker B; other site 359787004186 D-loop; other site 359787004187 H-loop/switch region; other site 359787004188 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 359787004189 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 359787004190 Walker A/P-loop; other site 359787004191 ATP binding site [chemical binding]; other site 359787004192 Q-loop/lid; other site 359787004193 ABC transporter signature motif; other site 359787004194 Walker B; other site 359787004195 D-loop; other site 359787004196 H-loop/switch region; other site 359787004197 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 359787004198 dimer interface [polypeptide binding]; other site 359787004199 conserved gate region; other site 359787004200 putative PBP binding loops; other site 359787004201 ABC-ATPase subunit interface; other site 359787004202 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 359787004203 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 359787004204 dimer interface [polypeptide binding]; other site 359787004205 conserved gate region; other site 359787004206 putative PBP binding loops; other site 359787004207 ABC-ATPase subunit interface; other site 359787004208 bifunctional preprotein translocase subunit SecD/SecF; Provisional; Region: PRK14726 359787004209 oligoendopeptidase F; Region: pepF; TIGR00181 359787004210 Peptidase family M3B Oligopeptidase F (PepF); Region: M3B_PepF_4; cd09609 359787004211 active site 359787004212 Zn binding site [ion binding]; other site 359787004213 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 359787004214 PhoU domain; Region: PhoU; pfam01895 359787004215 PhoU domain; Region: PhoU; pfam01895 359787004216 phosphate transporter ATP-binding protein; Provisional; Region: PRK14238 359787004217 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 359787004218 Walker A/P-loop; other site 359787004219 ATP binding site [chemical binding]; other site 359787004220 Q-loop/lid; other site 359787004221 ABC transporter signature motif; other site 359787004222 Walker B; other site 359787004223 D-loop; other site 359787004224 H-loop/switch region; other site 359787004225 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 359787004226 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 359787004227 dimer interface [polypeptide binding]; other site 359787004228 conserved gate region; other site 359787004229 putative PBP binding loops; other site 359787004230 ABC-ATPase subunit interface; other site 359787004231 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 359787004232 dimer interface [polypeptide binding]; other site 359787004233 conserved gate region; other site 359787004234 ABC-ATPase subunit interface; other site 359787004235 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 359787004236 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 359787004237 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 359787004238 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 359787004239 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 359787004240 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 359787004241 ABC transporter; Region: ABC_tran_2; pfam12848 359787004242 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 359787004243 aspartate kinase; Reviewed; Region: PRK06635 359787004244 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 359787004245 putative nucleotide binding site [chemical binding]; other site 359787004246 putative catalytic residues [active] 359787004247 putative Mg ion binding site [ion binding]; other site 359787004248 putative aspartate binding site [chemical binding]; other site 359787004249 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII and related proteins; Region: ACT_AK-LysC-DapG-like_1; cd04891 359787004250 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 359787004251 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 359787004252 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787004253 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 359787004254 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 359787004255 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 359787004256 dimer interface [polypeptide binding]; other site 359787004257 active site 359787004258 catalytic residue [active] 359787004259 dihydrodipicolinate reductase; Provisional; Region: PRK00048 359787004260 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787004261 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 359787004262 Tetrahydrodipicolinate succinyltransferase N-terminal; Region: DapH_N; pfam08503 359787004263 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-acetyltransferase; Region: DapD_Ac; TIGR03532 359787004264 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 359787004265 active site 359787004266 trimer interface [polypeptide binding]; other site 359787004267 substrate binding site [chemical binding]; other site 359787004268 CoA binding site [chemical binding]; other site 359787004269 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 359787004270 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 359787004271 metal binding site [ion binding]; metal-binding site 359787004272 dimer interface [polypeptide binding]; other site 359787004273 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 359787004274 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 359787004275 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 359787004276 catalytic residue [active] 359787004277 diaminopimelate decarboxylase; Region: lysA; TIGR01048 359787004278 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 359787004279 active site 359787004280 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 359787004281 substrate binding site [chemical binding]; other site 359787004282 catalytic residues [active] 359787004283 dimer interface [polypeptide binding]; other site 359787004284 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 359787004285 DNA-binding site [nucleotide binding]; DNA binding site 359787004286 RNA-binding motif; other site 359787004287 Protein of unknown function (DUF1033); Region: DUF1033; cl11549 359787004288 Acylphosphatase; Region: Acylphosphatase; cl00551 359787004289 5-bromo-4-chloroindolyl phosphate hydrolysis protein; Region: Halogen_Hydrol; cl02059 359787004290 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 359787004291 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 359787004292 Nitric oxide reductase activation protein [Inorganic ion transport and metabolism]; Region: NorD; COG4548 359787004293 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 359787004294 metal ion-dependent adhesion site (MIDAS); other site 359787004295 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 359787004296 Walker A motif; other site 359787004297 ATP binding site [chemical binding]; other site 359787004298 Walker B motif; other site 359787004299 arginine finger; other site 359787004300 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 359787004301 active site 359787004302 metal binding site [ion binding]; metal-binding site 359787004303 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 359787004304 active site 359787004305 metal binding site [ion binding]; metal-binding site 359787004306 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 359787004307 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 359787004308 E3 interaction surface; other site 359787004309 lipoyl attachment site [posttranslational modification]; other site 359787004310 e3 binding domain; Region: E3_binding; pfam02817 359787004311 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 359787004312 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 359787004313 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 359787004314 TPP-binding site [chemical binding]; other site 359787004315 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 359787004316 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 359787004317 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 359787004318 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 359787004319 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 359787004320 dimer interface [polypeptide binding]; other site 359787004321 phosphorylation site [posttranslational modification] 359787004322 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 359787004323 ATP binding site [chemical binding]; other site 359787004324 G-X-G motif; other site 359787004325 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 359787004326 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 359787004327 active site 359787004328 phosphorylation site [posttranslational modification] 359787004329 intermolecular recognition site; other site 359787004330 dimerization interface [polypeptide binding]; other site 359787004331 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 359787004332 DNA binding site [nucleotide binding] 359787004333 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 359787004334 active site 359787004335 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 359787004336 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 359787004337 active site 359787004338 homodimer interface [polypeptide binding]; other site 359787004339 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 359787004340 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 359787004341 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 359787004342 C-terminal peptidase (prc); Region: prc; TIGR00225 359787004343 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 359787004344 protein binding site [polypeptide binding]; other site 359787004345 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 359787004346 Catalytic dyad [active] 359787004347 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 359787004348 Protein of unknown function (DUF1250); Region: DUF1250; cl11485 359787004349 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 359787004350 HPr interaction site; other site 359787004351 glycerol kinase (GK) interaction site [polypeptide binding]; other site 359787004352 active site 359787004353 phosphorylation site [posttranslational modification] 359787004354 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 359787004355 SelR domain; Region: SelR; pfam01641 359787004356 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 359787004357 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 359787004358 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 359787004359 folate binding site [chemical binding]; other site 359787004360 NADP+ binding site [chemical binding]; other site 359787004361 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 359787004362 dimerization interface [polypeptide binding]; other site 359787004363 active site 359787004364 Disulphide isomerase; Region: Disulph_isomer; pfam06491 359787004365 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; cl07364 359787004366 Virulence factor; Region: Virulence_fact; pfam13769 359787004367 FOG: HEAT repeat [Energy production and conversion]; Region: COG1413 359787004368 HEAT repeat; Region: HEAT; pfam02985 359787004369 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; cl07364 359787004370 Protein of unknown function (DUF2602); Region: DUF2602; pfam10782 359787004371 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 359787004372 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 359787004373 RNA/DNA hybrid binding site [nucleotide binding]; other site 359787004374 active site 359787004375 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 359787004376 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 359787004377 GA module; Region: GA; cl08325 359787004378 GA module; Region: GA; cl08325 359787004379 GA module; Region: GA; cl08325 359787004380 GA module; Region: GA; cl08325 359787004381 GA module; Region: GA; cl08325 359787004382 GA module; Region: GA; cl08325 359787004383 GA module; Region: GA; cl08325 359787004384 GA module; Region: GA; cl08325 359787004385 GA module; Region: GA; cl08325 359787004386 GA module; Region: GA; cl08325 359787004387 GA module; Region: GA; cl08325 359787004388 GA module; Region: GA; cl08325 359787004389 GA module; Region: GA; cl08325 359787004390 GA module; Region: GA; cl08325 359787004391 GA module; Region: GA; cl08325 359787004392 GA module; Region: GA; cl08325 359787004393 GA module; Region: GA; cl08325 359787004394 GA module; Region: GA; cl08325 359787004395 GA module; Region: GA; cl08325 359787004396 GA module; Region: GA; cl08325 359787004397 GA module; Region: GA; cl08325 359787004398 GA module; Region: GA; cl08325 359787004399 GA module; Region: GA; cl08325 359787004400 GA module; Region: GA; cl08325 359787004401 Uncharacterized Sugar-binding Domain; Region: FIVAR; pfam07554 359787004402 GA module; Region: GA; cl08325 359787004403 GA module; Region: GA; cl08325 359787004404 Uncharacterized Sugar-binding Domain; Region: FIVAR; pfam07554 359787004405 GA module; Region: GA; cl08325 359787004406 Uncharacterized Sugar-binding Domain; Region: FIVAR; pfam07554 359787004407 GA module; Region: GA; cl08325 359787004408 GA module; Region: GA; cl08325 359787004409 GA module; Region: GA; cl08325 359787004410 GA module; Region: GA; cl08325 359787004411 GA module; Region: GA; cl08325 359787004412 GA module; Region: GA; cl08325 359787004413 GA module; Region: GA; cl08325 359787004414 GA module; Region: GA; cl08325 359787004415 GA module; Region: GA; cl08325 359787004416 GA module; Region: GA; cl08325 359787004417 GA module; Region: GA; cl08325 359787004418 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 359787004419 GA module; Region: GA; cl08325 359787004420 GA module; Region: GA; cl08325 359787004421 GA module; Region: GA; cl08325 359787004422 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 359787004423 GA module; Region: GA; cl08325 359787004424 GA module; Region: GA; cl08325 359787004425 GA module; Region: GA; cl08325 359787004426 GA module; Region: GA; cl08325 359787004427 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 359787004428 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 359787004429 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 359787004430 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 359787004431 L-type amino acid transporter; Region: 2A0308; TIGR00911 359787004432 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 359787004433 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 359787004434 tetramer interface [polypeptide binding]; other site 359787004435 pyridoxal 5'-phosphate binding site [chemical binding]; other site 359787004436 catalytic residue [active] 359787004437 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 359787004438 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 359787004439 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787004440 5'-3' exonuclease; Region: 53EXOc; smart00475 359787004441 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 359787004442 active site 359787004443 metal binding site 1 [ion binding]; metal-binding site 359787004444 putative 5' ssDNA interaction site; other site 359787004445 metal binding site 3; metal-binding site 359787004446 metal binding site 2 [ion binding]; metal-binding site 359787004447 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 359787004448 putative DNA binding site [nucleotide binding]; other site 359787004449 putative metal binding site [ion binding]; other site 359787004450 Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins; Region: DLP_2; cd09912 359787004451 Dynamin family; Region: Dynamin_N; pfam00350 359787004452 G1 box; other site 359787004453 GTP/Mg2+ binding site [chemical binding]; other site 359787004454 G2 box; other site 359787004455 Switch I region; other site 359787004456 G3 box; other site 359787004457 Switch II region; other site 359787004458 Predicted GTPases (dynamin-related) [General function prediction only]; Region: COG0699 359787004459 G4 box; other site 359787004460 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 359787004461 Dynamin family; Region: Dynamin_N; pfam00350 359787004462 G1 box; other site 359787004463 GTP/Mg2+ binding site [chemical binding]; other site 359787004464 G2 box; other site 359787004465 Switch I region; other site 359787004466 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 359787004467 G3 box; other site 359787004468 Switch II region; other site 359787004469 GTP/Mg2+ binding site [chemical binding]; other site 359787004470 G4 box; other site 359787004471 G5 box; other site 359787004472 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 359787004473 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 359787004474 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 359787004475 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 359787004476 THUMP domain; Region: THUMP; cl12076 359787004477 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787004478 cell division protein GpsB; Provisional; Region: PRK14127 359787004479 DivIVA domain; Region: DivI1A_domain; TIGR03544 359787004480 Protein of unknown function (DUF1273); Region: DUF1273; cl01859 359787004481 Bacterial domain of unknown function (DUF1798); Region: DUF1798; pfam08807 359787004482 Recombination protein U; Region: RecU; cl01314 359787004483 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 359787004484 Transglycosylase; Region: Transgly; cl07896 359787004485 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 359787004486 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 359787004487 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 359787004488 minor groove reading motif; other site 359787004489 helix-hairpin-helix signature motif; other site 359787004490 substrate binding pocket [chemical binding]; other site 359787004491 active site 359787004492 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 359787004493 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 359787004494 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 359787004495 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 359787004496 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 359787004497 putative dimer interface [polypeptide binding]; other site 359787004498 putative anticodon binding site; other site 359787004499 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 359787004500 homodimer interface [polypeptide binding]; other site 359787004501 motif 1; other site 359787004502 motif 2; other site 359787004503 active site 359787004504 motif 3; other site 359787004505 DnaQ family exonuclease/DinG family helicase, putative; Region: dinG_rel; TIGR01407 359787004506 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 359787004507 active site 359787004508 substrate binding site [chemical binding]; other site 359787004509 catalytic site [active] 359787004510 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 359787004511 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 359787004512 Helix-turn-helix domains; Region: HTH; cl00088 359787004513 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 359787004514 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 359787004515 tRNA CCA-pyrophosphorylase; Provisional; Region: PRK13299 359787004516 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 359787004517 active site 359787004518 NTP binding site [chemical binding]; other site 359787004519 metal binding triad [ion binding]; metal-binding site 359787004520 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 359787004521 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 359787004522 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 359787004523 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 359787004524 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 359787004525 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; cl01049 359787004526 Protein of unknown function (DUF1405); Region: DUF1405; cl01798 359787004527 Uncharacterized conserved protein [Function unknown]; Region: COG5582 359787004528 UPF0302 domain; Region: UPF0302; pfam08864 359787004529 IDEAL domain; Region: IDEAL; cl07452 359787004530 Vi polysaccharide biosynthesis protein TviE; Provisional; Region: PRK15179 359787004531 TPR repeat; Region: TPR_11; pfam13414 359787004532 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 359787004533 binding surface 359787004534 TPR motif; other site 359787004535 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 359787004536 binding surface 359787004537 TPR motif; other site 359787004538 tetratricopeptide repeat protein; Provisional; Region: PRK11788 359787004539 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 359787004540 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 359787004541 hinge; other site 359787004542 active site 359787004543 Dehydroquinate synthase-like (DHQ-like) and iron-containing alcohol dehydrogenases (Fe-ADH); Region: DHQ_Fe-ADH; cl02872 359787004544 active site 359787004545 NAD binding site [chemical binding]; other site 359787004546 metal binding site [ion binding]; metal-binding site 359787004547 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 359787004548 Tetramer interface [polypeptide binding]; other site 359787004549 active site 359787004550 FMN-binding site [chemical binding]; other site 359787004551 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 359787004552 active site 359787004553 multimer interface [polypeptide binding]; other site 359787004554 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 359787004555 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 359787004556 substrate binding pocket [chemical binding]; other site 359787004557 chain length determination region; other site 359787004558 substrate-Mg2+ binding site; other site 359787004559 catalytic residues [active] 359787004560 aspartate-rich region 1; other site 359787004561 active site lid residues [active] 359787004562 aspartate-rich region 2; other site 359787004563 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 359787004564 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 359787004565 S-adenosylmethionine binding site [chemical binding]; other site 359787004566 Heptaprenyl diphosphate synthase (HEPPP synthase) subunit 1; Region: HEPPP_synt_1; pfam07307 359787004567 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 359787004568 IHF dimer interface [polypeptide binding]; other site 359787004569 IHF - DNA interface [nucleotide binding]; other site 359787004570 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 359787004571 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787004572 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 359787004573 GTP-binding protein Der; Reviewed; Region: PRK00093 359787004574 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 359787004575 G1 box; other site 359787004576 GTP/Mg2+ binding site [chemical binding]; other site 359787004577 Switch I region; other site 359787004578 G2 box; other site 359787004579 Switch II region; other site 359787004580 G3 box; other site 359787004581 G4 box; other site 359787004582 G5 box; other site 359787004583 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 359787004584 G1 box; other site 359787004585 GTP/Mg2+ binding site [chemical binding]; other site 359787004586 Switch I region; other site 359787004587 G2 box; other site 359787004588 G3 box; other site 359787004589 Switch II region; other site 359787004590 G4 box; other site 359787004591 G5 box; other site 359787004592 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06676 359787004593 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 359787004594 RNA binding site [nucleotide binding]; other site 359787004595 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 359787004596 RNA binding site [nucleotide binding]; other site 359787004597 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 359787004598 RNA binding site [nucleotide binding]; other site 359787004599 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 359787004600 RNA binding site [nucleotide binding]; other site 359787004601 cytidylate kinase; Provisional; Region: cmk; PRK00023 359787004602 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 359787004603 CMP-binding site; other site 359787004604 The sites determining sugar specificity; other site 359787004605 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 359787004606 active site 359787004607 homotetramer interface [polypeptide binding]; other site 359787004608 homodimer interface [polypeptide binding]; other site 359787004609 putative bacillithiol system oxidoreductase, YpdA family; Region: Bthiol_YpdA; TIGR04018 359787004610 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787004611 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 359787004612 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 359787004613 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 359787004614 ATP binding site [chemical binding]; other site 359787004615 putative Mg++ binding site [ion binding]; other site 359787004616 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 359787004617 nucleotide binding region [chemical binding]; other site 359787004618 ATP-binding site [chemical binding]; other site 359787004619 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4955 359787004620 Ferredoxin [Energy production and conversion]; Region: Fer; COG1141 359787004621 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 359787004622 Protein of unknown function (DUF3816); Region: DUF3816; pfam12822 359787004623 Protein of unknown function (DUF1672); Region: DUF1672; pfam07901 359787004624 Protein of unknown function (DUF1672); Region: DUF1672; pfam07901 359787004625 Protein of unknown function (DUF1672); Region: DUF1672; pfam07901 359787004626 V-type ATPase 116kDa subunit family; Region: V_ATPase_I; pfam01496 359787004627 Protein of unknown function (DUF1672); Region: DUF1672; pfam07901 359787004628 Methyl-accepting chemotaxis protein [Cell motility and secretion / Signal transduction mechanisms]; Region: Tar; COG0840 359787004629 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 359787004630 dimerization interface [polypeptide binding]; other site 359787004631 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 359787004632 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 359787004633 dimer interface [polypeptide binding]; other site 359787004634 phosphorylation site [posttranslational modification] 359787004635 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 359787004636 ATP binding site [chemical binding]; other site 359787004637 Mg2+ binding site [ion binding]; other site 359787004638 G-X-G motif; other site 359787004639 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 359787004640 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 359787004641 active site 359787004642 phosphorylation site [posttranslational modification] 359787004643 intermolecular recognition site; other site 359787004644 dimerization interface [polypeptide binding]; other site 359787004645 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 359787004646 DNA binding site [nucleotide binding] 359787004647 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 359787004648 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 359787004649 RNA binding surface [nucleotide binding]; other site 359787004650 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 359787004651 active site 359787004652 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 359787004653 ScpA/B protein; Region: ScpA_ScpB; cl00598 359787004654 Domain of unknown function (DUF309); Region: DUF309; cl00667 359787004655 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 359787004656 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 359787004657 Int/Topo IB signature motif; other site 359787004658 active site 359787004659 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 359787004660 metal binding site 2 [ion binding]; metal-binding site 359787004661 putative DNA binding helix; other site 359787004662 metal binding site 1 [ion binding]; metal-binding site 359787004663 dimer interface [polypeptide binding]; other site 359787004664 structural Zn2+ binding site [ion binding]; other site 359787004665 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 359787004666 dimer interface [polypeptide binding]; other site 359787004667 ADP-ribose binding site [chemical binding]; other site 359787004668 active site 359787004669 nudix motif; other site 359787004670 metal binding site [ion binding]; metal-binding site 359787004671 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 359787004672 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 359787004673 active site 359787004674 catalytic tetrad [active] 359787004675 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 359787004676 classical (c) SDRs; Region: SDR_c; cd05233 359787004677 NAD(P) binding site [chemical binding]; other site 359787004678 active site 359787004679 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787004680 pyrroline-5-carboxylate reductase; Region: proC; TIGR00112 359787004681 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 359787004682 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 359787004683 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 359787004684 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 359787004685 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 359787004686 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 359787004687 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 359787004688 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 359787004689 Ca binding site [ion binding]; other site 359787004690 active site 359787004691 catalytic site [active] 359787004692 Transcriptional regulators [Transcription]; Region: PurR; COG1609 359787004693 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 359787004694 DNA binding site [nucleotide binding] 359787004695 domain linker motif; other site 359787004696 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 359787004697 putative ligand binding site [chemical binding]; other site 359787004698 putative dimerization interface [polypeptide binding]; other site 359787004699 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 359787004700 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 359787004701 H+ Antiporter protein; Region: 2A0121; TIGR00900 359787004702 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 359787004703 putative substrate translocation pore; other site 359787004704 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787004705 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 359787004706 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 359787004707 M20 Peptidase T like enzymes specifically cleave tripeptides; Region: M20_peptT_like; cd05683 359787004708 peptidase T-like protein; Region: PepT-like; TIGR01883 359787004709 metal binding site [ion binding]; metal-binding site 359787004710 putative dimer interface [polypeptide binding]; other site 359787004711 Predicted membrane protein [Function unknown]; Region: COG4129 359787004712 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 359787004713 DUF939 C-terminal domain; Region: DUF939_C; pfam11728 359787004714 Disulphide isomerase; Region: Disulph_isomer; pfam06491 359787004715 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 359787004716 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 359787004717 E3 interaction surface; other site 359787004718 lipoyl attachment site [posttranslational modification]; other site 359787004719 e3 binding domain; Region: E3_binding; pfam02817 359787004720 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 359787004721 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 359787004722 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 359787004723 alpha subunit interface [polypeptide binding]; other site 359787004724 TPP binding site [chemical binding]; other site 359787004725 heterodimer interface [polypeptide binding]; other site 359787004726 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 359787004727 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 359787004728 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 359787004729 tetramer interface [polypeptide binding]; other site 359787004730 TPP-binding site [chemical binding]; other site 359787004731 heterodimer interface [polypeptide binding]; other site 359787004732 phosphorylation loop region [posttranslational modification] 359787004733 dihydrolipoamide dehydrogenase; Validated; Region: PRK05976 359787004734 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787004735 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 359787004736 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 359787004737 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 359787004738 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 359787004739 Walker A/P-loop; other site 359787004740 ATP binding site [chemical binding]; other site 359787004741 Q-loop/lid; other site 359787004742 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 359787004743 Q-loop/lid; other site 359787004744 ABC transporter signature motif; other site 359787004745 Walker B; other site 359787004746 D-loop; other site 359787004747 H-loop/switch region; other site 359787004748 arginine repressor; Provisional; Region: PRK04280 359787004749 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 359787004750 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 359787004751 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 359787004752 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 359787004753 substrate binding pocket [chemical binding]; other site 359787004754 chain length determination region; other site 359787004755 substrate-Mg2+ binding site; other site 359787004756 catalytic residues [active] 359787004757 aspartate-rich region 1; other site 359787004758 active site lid residues [active] 359787004759 aspartate-rich region 2; other site 359787004760 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 359787004761 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 359787004762 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 359787004763 generic binding surface II; other site 359787004764 generic binding surface I; other site 359787004765 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 359787004766 putative RNA binding site [nucleotide binding]; other site 359787004767 Asp23 family; Region: Asp23; cl00574 359787004768 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 359787004769 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 359787004770 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 359787004771 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 359787004772 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 359787004773 carboxyltransferase (CT) interaction site; other site 359787004774 biotinylation site [posttranslational modification]; other site 359787004775 elongation factor P; Validated; Region: PRK00529 359787004776 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 359787004777 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 359787004778 RNA binding site [nucleotide binding]; other site 359787004779 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 359787004780 RNA binding site [nucleotide binding]; other site 359787004781 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 359787004782 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 359787004783 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 359787004784 active site 359787004785 Axonemal dynein light chain; Region: Ax_dynein_light; pfam10211 359787004786 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 359787004787 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 359787004788 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 359787004789 active site residue [active] 359787004790 Glycine cleavage system protein P (pyridoxal-binding), C-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG1003 359787004791 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 359787004792 tetramer interface [polypeptide binding]; other site 359787004793 pyridoxal 5'-phosphate binding site [chemical binding]; other site 359787004794 catalytic residue [active] 359787004795 Glycine cleavage system protein P (pyridoxal-binding), N-terminal domain [Amino acid transport and metabolism]; Region: GcvP; COG0403 359787004796 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 359787004797 tetramer interface [polypeptide binding]; other site 359787004798 pyridoxal 5'-phosphate binding site [chemical binding]; other site 359787004799 catalytic residue [active] 359787004800 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 359787004801 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 359787004802 Shikimate kinase [Amino acid transport and metabolism]; Region: AroK; COG0703 359787004803 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 359787004804 ADP binding site [chemical binding]; other site 359787004805 magnesium binding site [ion binding]; other site 359787004806 putative shikimate binding site; other site 359787004807 Competence protein ComGF [Intracellular trafficking and secretion]; Region: ComGF; COG4940 359787004808 Type II secretory pathway, pseudopilin PulG [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulG; COG2165 359787004809 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; cl06830 359787004810 Competence protein ComGC [Intracellular trafficking and secretion]; Region: ComGC; COG4537 359787004811 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 359787004812 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 359787004813 Type II secretion system (T2SS), protein F; Region: T2SF; cl00906 359787004814 Type II/IV secretion system protein; Region: T2SE; pfam00437 359787004815 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 359787004816 Walker A motif; other site 359787004817 ATP binding site [chemical binding]; other site 359787004818 Walker B motif; other site 359787004819 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 359787004820 Domain of unknown function DUF77; Region: DUF77; cl00307 359787004821 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 359787004822 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 359787004823 Bacterial protein of unknown function (DUF910); Region: DUF910; cl11543 359787004824 Rhomboid family; Region: Rhomboid; cl11446 359787004825 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 359787004826 binding surface 359787004827 TPR motif; other site 359787004828 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 359787004829 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 359787004830 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 359787004831 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 359787004832 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 359787004833 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 359787004834 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 359787004835 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 359787004836 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 359787004837 metal binding site 2 [ion binding]; metal-binding site 359787004838 putative DNA binding helix; other site 359787004839 metal binding site 1 [ion binding]; metal-binding site 359787004840 dimer interface [polypeptide binding]; other site 359787004841 structural Zn2+ binding site [ion binding]; other site 359787004842 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 359787004843 ABC-ATPase subunit interface; other site 359787004844 dimer interface [polypeptide binding]; other site 359787004845 putative PBP binding regions; other site 359787004846 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 359787004847 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 359787004848 endonuclease IV; Provisional; Region: PRK01060 359787004849 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 359787004850 AP (apurinic/apyrimidinic) site pocket; other site 359787004851 DNA interaction; other site 359787004852 Metal-binding active site; metal-binding site 359787004853 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 359787004854 DEAD-like helicases superfamily; Region: DEXDc; smart00487 359787004855 ATP binding site [chemical binding]; other site 359787004856 Mg++ binding site [ion binding]; other site 359787004857 motif III; other site 359787004858 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 359787004859 nucleotide binding region [chemical binding]; other site 359787004860 ATP-binding site [chemical binding]; other site 359787004861 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 359787004862 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 359787004863 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 359787004864 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787004865 RNA polymerase sigma factor RpoD; Validated; Region: PRK09210 359787004866 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 359787004867 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 359787004868 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 359787004869 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 359787004870 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 359787004871 DNA binding residues [nucleotide binding] 359787004872 DNA primase, catalytic core; Region: dnaG; TIGR01391 359787004873 CHC2 zinc finger; Region: zf-CHC2; cl15369 359787004874 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 359787004875 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 359787004876 active site 359787004877 metal binding site [ion binding]; metal-binding site 359787004878 interdomain interaction site; other site 359787004879 Kinase/pyrophosphorylase; Region: Kinase-PPPase; cl00780 359787004880 Helix-turn-helix domains; Region: HTH; cl00088 359787004881 FOG: CBS domain [General function prediction only]; Region: COG0517 359787004882 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 359787004883 glycyl-tRNA synthetase; Provisional; Region: PRK04173 359787004884 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 359787004885 motif 1; other site 359787004886 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 359787004887 active site 359787004888 motif 2; other site 359787004889 motif 3; other site 359787004890 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 359787004891 anticodon binding site; other site 359787004892 DNA repair protein RecO; Region: reco; TIGR00613 359787004893 Recombination protein O N terminal; Region: RecO_N; cl15812 359787004894 Recombination protein O C terminal; Region: RecO_C; pfam02565 359787004895 GTPase Era; Reviewed; Region: era; PRK00089 359787004896 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 359787004897 G1 box; other site 359787004898 GTP/Mg2+ binding site [chemical binding]; other site 359787004899 Switch I region; other site 359787004900 G2 box; other site 359787004901 Switch II region; other site 359787004902 G3 box; other site 359787004903 G4 box; other site 359787004904 G5 box; other site 359787004905 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 359787004906 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 359787004907 active site 359787004908 catalytic motif [active] 359787004909 Zn binding site [ion binding]; other site 359787004910 Prokaryotic diacylglycerol kinase; Region: DAGK_prokar; cl00526 359787004911 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 359787004912 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 359787004913 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 359787004914 SigmaW regulon antibacterial; Region: YdfA_immunity; cl12057 359787004915 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 359787004916 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 359787004917 2-methylthioadenine synthetase [Translation, ribosomal structure and biogenesis]; Region: MiaB; COG0621 359787004918 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 359787004919 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 359787004920 FeS/SAM binding site; other site 359787004921 TRAM domain; Region: TRAM; cl01282 359787004922 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 359787004923 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 359787004924 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 359787004925 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 359787004926 S-adenosylmethionine binding site [chemical binding]; other site 359787004927 chaperone protein DnaJ; Provisional; Region: PRK14280 359787004928 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 359787004929 HSP70 interaction site [polypeptide binding]; other site 359787004930 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 359787004931 substrate binding site [polypeptide binding]; other site 359787004932 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 359787004933 Zn binding sites [ion binding]; other site 359787004934 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 359787004935 dimer interface [polypeptide binding]; other site 359787004936 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 359787004937 heat shock protein GrpE; Provisional; Region: PRK14140 359787004938 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 359787004939 dimer interface [polypeptide binding]; other site 359787004940 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 359787004941 heat shock gene repressor HrcA; Region: hrcA; TIGR00331 359787004942 Helix-turn-helix domains; Region: HTH; cl00088 359787004943 HrcA protein C terminal domain; Region: HrcA; pfam01628 359787004944 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 359787004945 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 359787004946 FeS/SAM binding site; other site 359787004947 HemN C-terminal domain; Region: HemN_C; pfam06969 359787004948 Protein of unknown function (DUF3125); Region: DUF3125; pfam11323 359787004949 GTP-binding protein LepA; Provisional; Region: PRK05433 359787004950 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 359787004951 G1 box; other site 359787004952 putative GEF interaction site [polypeptide binding]; other site 359787004953 GTP/Mg2+ binding site [chemical binding]; other site 359787004954 Switch I region; other site 359787004955 G2 box; other site 359787004956 G3 box; other site 359787004957 Switch II region; other site 359787004958 G4 box; other site 359787004959 G5 box; other site 359787004960 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 359787004961 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 359787004962 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 359787004963 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 359787004964 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 359787004965 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 359787004966 Competence protein; Region: Competence; cl00471 359787004967 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 359787004968 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 359787004969 catalytic motif [active] 359787004970 Zn binding site [ion binding]; other site 359787004971 comEA protein; Region: comE; TIGR01259 359787004972 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 359787004973 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 359787004974 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 359787004975 S-adenosylmethionine binding site [chemical binding]; other site 359787004976 Oligomerisation domain; Region: Oligomerisation; cl00519 359787004977 Predicted HD superfamily hydrolase involved in NAD metabolism [Coenzyme metabolism]; Region: COG1713 359787004978 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 359787004979 Zn2+ binding site [ion binding]; other site 359787004980 Mg2+ binding site [ion binding]; other site 359787004981 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 359787004982 nicotinate (nicotinamide) nucleotide adenylyltransferase; Region: TIGR00482 359787004983 active site 359787004984 (T/H)XGH motif; other site 359787004985 CRS1 / YhbY (CRM) domain; Region: CRS1_YhbY; cl00663 359787004986 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 359787004987 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 359787004988 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 359787004989 shikimate binding site; other site 359787004990 NAD(P) binding site [chemical binding]; other site 359787004991 GTPase YqeH; Provisional; Region: PRK13796 359787004992 Circularly permuted YqeH GTPase; Region: YqeH; cd01855 359787004993 GTP/Mg2+ binding site [chemical binding]; other site 359787004994 G4 box; other site 359787004995 G5 box; other site 359787004996 G1 box; other site 359787004997 Switch I region; other site 359787004998 G2 box; other site 359787004999 G3 box; other site 359787005000 Switch II region; other site 359787005001 Predicted hydrolase of the HAD superfamily [General function prediction only]; Region: COG2179 359787005002 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 359787005003 active site 359787005004 motif I; other site 359787005005 motif II; other site 359787005006 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 359787005007 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 359787005008 LamB/YcsF family; Region: LamB_YcsF; cl00664 359787005009 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 359787005010 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 359787005011 ATP-grasp domain; Region: ATP-grasp_4; cl03087 359787005012 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 359787005013 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 359787005014 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 359787005015 carboxyltransferase (CT) interaction site; other site 359787005016 biotinylation site [posttranslational modification]; other site 359787005017 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 359787005018 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 359787005019 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 359787005020 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 359787005021 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 359787005022 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 359787005023 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 359787005024 Sugar specificity; other site 359787005025 Pyrimidine base specificity; other site 359787005026 ATP-binding site [chemical binding]; other site 359787005027 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 359787005028 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 359787005029 Peptidase family U32; Region: Peptidase_U32; cl03113 359787005030 Peptidase family U32; Region: Peptidase_U32; cl03113 359787005031 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 359787005032 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 359787005033 S-adenosylmethionine binding site [chemical binding]; other site 359787005034 Protein of unknown function (DUF1292); Region: DUF1292; cl01608 359787005035 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 359787005036 Bacterial protein of unknown function (DUF965); Region: DUF965; cl01857 359787005037 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 359787005038 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 359787005039 motif 1; other site 359787005040 active site 359787005041 motif 2; other site 359787005042 motif 3; other site 359787005043 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 359787005044 DHHA1 domain; Region: DHHA1; pfam02272 359787005045 helicase, putative, RecD/TraA family; Region: recD_rel; TIGR01448 359787005046 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 359787005047 Family description; Region: UvrD_C_2; cl15862 359787005048 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 359787005049 binding surface 359787005050 TPR motif; other site 359787005051 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 359787005052 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 359787005053 binding surface 359787005054 TPR motif; other site 359787005055 TPR repeat; Region: TPR_11; pfam13414 359787005056 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 359787005057 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 359787005058 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 359787005059 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 359787005060 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 359787005061 catalytic residue [active] 359787005062 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 359787005063 CsbD-like; Region: CsbD; cl15799 359787005064 Predicted transcriptional regulator [Transcription]; Region: COG1959 359787005065 Helix-turn-helix domains; Region: HTH; cl00088 359787005066 recombination factor protein RarA; Reviewed; Region: PRK13342 359787005067 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 359787005068 Walker A motif; other site 359787005069 ATP binding site [chemical binding]; other site 359787005070 Walker B motif; other site 359787005071 arginine finger; other site 359787005072 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 359787005073 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 359787005074 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 359787005075 putative ATP binding site [chemical binding]; other site 359787005076 putative substrate interface [chemical binding]; other site 359787005077 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 359787005078 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 359787005079 dimer interface [polypeptide binding]; other site 359787005080 anticodon binding site; other site 359787005081 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 359787005082 homodimer interface [polypeptide binding]; other site 359787005083 motif 1; other site 359787005084 active site 359787005085 motif 2; other site 359787005086 GAD domain; Region: GAD; pfam02938 359787005087 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 359787005088 motif 3; other site 359787005089 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 359787005090 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 359787005091 dimer interface [polypeptide binding]; other site 359787005092 motif 1; other site 359787005093 active site 359787005094 motif 2; other site 359787005095 motif 3; other site 359787005096 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 359787005097 anticodon binding site; other site 359787005098 Bacterial SH3 domain; Region: SH3_3; cl02551 359787005099 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 359787005100 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 359787005101 active site 359787005102 metal binding site [ion binding]; metal-binding site 359787005103 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 359787005104 putative active site [active] 359787005105 dimerization interface [polypeptide binding]; other site 359787005106 putative tRNAtyr binding site [nucleotide binding]; other site 359787005107 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 359787005108 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 359787005109 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 359787005110 synthetase active site [active] 359787005111 NTP binding site [chemical binding]; other site 359787005112 metal binding site [ion binding]; metal-binding site 359787005113 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 359787005114 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 359787005115 Adenine/guanine phosphoribosyltransferases and related PRPP-binding proteins [Nucleotide transport and metabolism]; Region: Apt; COG0503 359787005116 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 359787005117 active site 359787005118 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 359787005119 DHH family; Region: DHH; pfam01368 359787005120 DHHA1 domain; Region: DHHA1; pfam02272 359787005121 Single-strand DNA-specific exonuclease, C terminal domain; Region: ssDNA-exonuc_C; cl11538 359787005122 bifunctional preprotein translocase subunit SecD/SecF; Reviewed; Region: PRK13024 359787005123 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 359787005124 Protein export membrane protein; Region: SecD_SecF; cl14618 359787005125 Protein export membrane protein; Region: SecD_SecF; cl14618 359787005126 Preprotein translocase subunit; Region: YajC; cl00806 359787005127 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 359787005128 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 359787005129 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 359787005130 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 359787005131 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 359787005132 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 359787005133 Walker A motif; other site 359787005134 ATP binding site [chemical binding]; other site 359787005135 Walker B motif; other site 359787005136 arginine finger; other site 359787005137 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 359787005138 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 359787005139 RuvA N terminal domain; Region: RuvA_N; pfam01330 359787005140 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 359787005141 hypothetical protein; Provisional; Region: PRK04435 359787005142 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 359787005143 GTPase CgtA; Reviewed; Region: obgE; PRK12297 359787005144 GTP1/OBG; Region: GTP1_OBG; pfam01018 359787005145 Obg GTPase; Region: Obg; cd01898 359787005146 G1 box; other site 359787005147 GTP/Mg2+ binding site [chemical binding]; other site 359787005148 Switch I region; other site 359787005149 G2 box; other site 359787005150 G3 box; other site 359787005151 Switch II region; other site 359787005152 G4 box; other site 359787005153 G5 box; other site 359787005154 Domain of unknown function (DUF1967); Region: DUF1967; cl07779 359787005155 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 359787005156 Protein of unknown function (DUF464); Region: DUF464; cl01080 359787005157 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 359787005158 rod shape-determining protein MreD; Region: MreD; cl01087 359787005159 rod shape-determining protein MreC; Provisional; Region: PRK13922 359787005160 rod shape-determining protein MreC; Region: MreC; pfam04085 359787005161 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 359787005162 S-adenosylmethionine binding site [chemical binding]; other site 359787005163 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 359787005164 S-adenosylmethionine binding site [chemical binding]; other site 359787005165 aminoglycoside resistance protein; Provisional; Region: PRK13746 359787005166 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 359787005167 active site 359787005168 NTP binding site [chemical binding]; other site 359787005169 metal binding triad [ion binding]; metal-binding site 359787005170 antibiotic binding site [chemical binding]; other site 359787005171 Domain of unknown function (DUF4111); Region: DUF4111; pfam13427 359787005172 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 359787005173 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 359787005174 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 359787005175 Int/Topo IB signature motif; other site 359787005176 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 359787005177 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 359787005178 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 359787005179 Int/Topo IB signature motif; other site 359787005180 hypothetical protein; Reviewed; Region: PRK00024 359787005181 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 359787005182 MPN+ (JAMM) motif; other site 359787005183 Zinc-binding site [ion binding]; other site 359787005184 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 359787005185 Type IV leader peptidase family; Region: Peptidase_A24; cl02077 359787005186 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 359787005187 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 359787005188 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 359787005189 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 359787005190 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 359787005191 active site 359787005192 HIGH motif; other site 359787005193 nucleotide binding site [chemical binding]; other site 359787005194 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 359787005195 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 359787005196 active site 359787005197 KMSKS motif; other site 359787005198 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 359787005199 tRNA binding surface [nucleotide binding]; other site 359787005200 anticodon binding site; other site 359787005201 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 359787005202 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 359787005203 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 359787005204 Putative ammonia monooxygenase; Region: AmoA; pfam05145 359787005205 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 359787005206 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 359787005207 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 359787005208 inhibitor-cofactor binding pocket; inhibition site 359787005209 pyridoxal 5'-phosphate binding site [chemical binding]; other site 359787005210 catalytic residue [active] 359787005211 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 359787005212 dimer interface [polypeptide binding]; other site 359787005213 active site 359787005214 Schiff base residues; other site 359787005215 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 359787005216 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 359787005217 active site 359787005218 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 359787005219 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 359787005220 domain interfaces; other site 359787005221 active site 359787005222 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 359787005223 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 359787005224 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 359787005225 tRNA; other site 359787005226 putative tRNA binding site [nucleotide binding]; other site 359787005227 putative NADP binding site [chemical binding]; other site 359787005228 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 359787005229 Predicted GTPase [General function prediction only]; Region: COG0218 359787005230 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 359787005231 G1 box; other site 359787005232 GTP/Mg2+ binding site [chemical binding]; other site 359787005233 Switch I region; other site 359787005234 G2 box; other site 359787005235 G3 box; other site 359787005236 Switch II region; other site 359787005237 G4 box; other site 359787005238 G5 box; other site 359787005239 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 359787005240 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 359787005241 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 359787005242 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 359787005243 trigger factor; Provisional; Region: tig; PRK01490 359787005244 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 359787005245 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 359787005246 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 359787005247 nudix motif; other site 359787005248 ribosomal protein L20; Region: rpl20; CHL00068 359787005249 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 359787005250 23S rRNA binding site [nucleotide binding]; other site 359787005251 L21 binding site [polypeptide binding]; other site 359787005252 L13 binding site [polypeptide binding]; other site 359787005253 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 359787005254 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 359787005255 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 359787005256 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 359787005257 Amino acid transporters [Amino acid transport and metabolism]; Region: LysP; COG0833 359787005258 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 359787005259 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 359787005260 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 359787005261 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 359787005262 active site 359787005263 dimer interface [polypeptide binding]; other site 359787005264 motif 1; other site 359787005265 motif 2; other site 359787005266 motif 3; other site 359787005267 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 359787005268 anticodon binding site; other site 359787005269 primosomal protein DnaI; Reviewed; Region: PRK08939 359787005270 Primosomal protein DnaI N-terminus; Region: DnaI_N; pfam07319 359787005271 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 359787005272 Walker A motif; other site 359787005273 ATP binding site [chemical binding]; other site 359787005274 Walker B motif; other site 359787005275 Replication initiation/membrane attachment protein [DNA replication, recombination, and repair]; Region: DnaB; COG3611 359787005276 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 359787005277 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 359787005278 ATP cone domain; Region: ATP-cone; pfam03477 359787005279 glyceraldehyde-3-phosphate dehydrogenase; Validated; Region: PRK07729 359787005280 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787005281 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 359787005282 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 359787005283 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 359787005284 CoA-binding site [chemical binding]; other site 359787005285 ATP-binding [chemical binding]; other site 359787005286 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 359787005287 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 359787005288 DNA binding site [nucleotide binding] 359787005289 catalytic residue [active] 359787005290 H2TH interface [polypeptide binding]; other site 359787005291 putative catalytic residues [active] 359787005292 turnover-facilitating residue; other site 359787005293 intercalation triad [nucleotide binding]; other site 359787005294 8OG recognition residue [nucleotide binding]; other site 359787005295 putative reading head residues; other site 359787005296 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 359787005297 DNA polymerase I; Provisional; Region: PRK05755 359787005298 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 359787005299 active site 359787005300 metal binding site 1 [ion binding]; metal-binding site 359787005301 putative 5' ssDNA interaction site; other site 359787005302 metal binding site 3; metal-binding site 359787005303 metal binding site 2 [ion binding]; metal-binding site 359787005304 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 359787005305 putative DNA binding site [nucleotide binding]; other site 359787005306 putative metal binding site [ion binding]; other site 359787005307 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 359787005308 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 359787005309 active site 359787005310 DNA binding site [nucleotide binding] 359787005311 catalytic site [active] 359787005312 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 359787005313 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 359787005314 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 359787005315 dimer interface [polypeptide binding]; other site 359787005316 phosphorylation site [posttranslational modification] 359787005317 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 359787005318 ATP binding site [chemical binding]; other site 359787005319 Mg2+ binding site [ion binding]; other site 359787005320 G-X-G motif; other site 359787005321 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 359787005322 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 359787005323 active site 359787005324 phosphorylation site [posttranslational modification] 359787005325 intermolecular recognition site; other site 359787005326 dimerization interface [polypeptide binding]; other site 359787005327 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 359787005328 DNA binding site [nucleotide binding] 359787005329 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 359787005330 isocitrate dehydrogenase; Validated; Region: PRK07362 359787005331 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 359787005332 dimer interface [polypeptide binding]; other site 359787005333 Citrate synthase; Region: Citrate_synt; pfam00285 359787005334 active site 359787005335 citrylCoA binding site [chemical binding]; other site 359787005336 oxalacetate/citrate binding site [chemical binding]; other site 359787005337 coenzyme A binding site [chemical binding]; other site 359787005338 catalytic triad [active] 359787005339 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 359787005340 pyruvate kinase; Provisional; Region: PRK06354 359787005341 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 359787005342 domain interfaces; other site 359787005343 active site 359787005344 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 359787005345 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 359787005346 active site 359787005347 ADP/pyrophosphate binding site [chemical binding]; other site 359787005348 dimerization interface [polypeptide binding]; other site 359787005349 allosteric effector site; other site 359787005350 fructose-1,6-bisphosphate binding site; other site 359787005351 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 359787005352 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 359787005353 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 359787005354 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 359787005355 Malic enzyme [Energy production and conversion]; Region: SfcA; COG0281 359787005356 Malic enzyme, N-terminal domain; Region: malic; pfam00390 359787005357 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 359787005358 putative NAD(P) binding site [chemical binding]; other site 359787005359 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 359787005360 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 359787005361 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 359787005362 generic binding surface I; other site 359787005363 generic binding surface II; other site 359787005364 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 359787005365 DHH family; Region: DHH; pfam01368 359787005366 DHHA1 domain; Region: DHHA1; pfam02272 359787005367 Predicted transcriptional regulator containing CBS domains [Transcription]; Region: COG4109 359787005368 Helix-turn-helix domains; Region: HTH; cl00088 359787005369 DNA-binding site [nucleotide binding]; DNA binding site 359787005370 DRTGG domain; Region: DRTGG; cl12147 359787005371 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 359787005372 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 359787005373 Ligand Binding Site [chemical binding]; other site 359787005374 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 359787005375 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 359787005376 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 359787005377 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 359787005378 active site 359787005379 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 359787005380 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 359787005381 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787005382 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 359787005383 Ligand Binding Site [chemical binding]; other site 359787005384 Acetokinase family; Region: Acetate_kinase; cl01029 359787005385 propionate/acetate kinase; Provisional; Region: PRK12379 359787005386 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0827 359787005387 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787005388 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 359787005389 dimer interface [polypeptide binding]; other site 359787005390 catalytic triad [active] 359787005391 peroxidatic and resolving cysteines [active] 359787005392 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 359787005393 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 359787005394 thiamine biosynthesis protein ThiI; Provisional; Region: PRK01565 359787005395 THUMP domain; Region: THUMP; cl12076 359787005396 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 359787005397 Ligand Binding Site [chemical binding]; other site 359787005398 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 359787005399 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 359787005400 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 359787005401 catalytic residue [active] 359787005402 septation ring formation regulator EzrA; Provisional; Region: PRK04778 359787005403 GAF domain; Region: GAF; cl15785 359787005404 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 359787005405 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 359787005406 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 359787005407 RNA binding surface [nucleotide binding]; other site 359787005408 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 359787005409 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 359787005410 active site 359787005411 catalytic site [active] 359787005412 OsmC-like protein; Region: OsmC; cl00767 359787005413 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 359787005414 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 359787005415 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 359787005416 catalytic residue [active] 359787005417 D-3-phosphoglycerate dehydrogenase; Region: PGDH; TIGR01327 359787005418 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787005419 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 359787005420 putative L-serine binding site [chemical binding]; other site 359787005421 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 359787005422 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 359787005423 motif II; other site 359787005424 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 359787005425 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 359787005426 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 359787005427 active site turn [active] 359787005428 phosphorylation site [posttranslational modification] 359787005429 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 359787005430 putative acyl-acceptor binding pocket; other site 359787005431 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 359787005432 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 359787005433 protein binding site [polypeptide binding]; other site 359787005434 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 359787005435 catalytic core domain of tyrosinyl-tRNA and tryptophanyl-tRNA synthetase; Region: Tyr_Trp_RS_core; cd00395 359787005436 active site 359787005437 HIGH motif; other site 359787005438 dimer interface [polypeptide binding]; other site 359787005439 KMSKS motif; other site 359787005440 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 359787005441 RNA binding surface [nucleotide binding]; other site 359787005442 Transglycosylase; Region: Transgly; cl07896 359787005443 haptoglobin-binding heme uptake protein HarA; Region: IsdH_HarA; TIGR03658 359787005444 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 359787005445 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cl02760 359787005446 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cl02760 359787005447 NEAr Transport domain, a component of cell surface proteins; Region: NEAT; cd06920 359787005448 heme-binding site [chemical binding]; other site 359787005449 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 359787005450 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 359787005451 Potassium binding sites [ion binding]; other site 359787005452 Cesium cation binding sites [ion binding]; other site 359787005453 acetyl-CoA synthetase; Provisional; Region: PRK04319 359787005454 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 359787005455 AMP-binding enzyme; Region: AMP-binding; cl15778 359787005456 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 359787005457 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 359787005458 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 359787005459 catabolite control protein A; Region: ccpA; TIGR01481 359787005460 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 359787005461 DNA binding site [nucleotide binding] 359787005462 domain linker motif; other site 359787005463 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 359787005464 dimerization interface [polypeptide binding]; other site 359787005465 effector binding site; other site 359787005466 bifunctional 3-deoxy-7-phosphoheptulonate synthase/chorismate mutase; Reviewed; Region: PRK12595 359787005467 Chorismate mutase type II; Region: CM_2; cl00693 359787005468 NeuB family; Region: NeuB; cl00496 359787005469 Bacterial protein of unknown function (DUF948); Region: DUF948; cl01972 359787005470 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 359787005471 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 359787005472 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 359787005473 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 359787005474 Ring-infected erythrocyte surface antigen; Provisional; Region: PTZ00341 359787005475 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 359787005476 HerA helicase [Replication, recombination, and repair]; Region: COG0433 359787005477 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 359787005478 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 359787005479 putative tRNA-binding site [nucleotide binding]; other site 359787005480 Protein of unknown function (DUF1444); Region: DUF1444; cl02011 359787005481 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 359787005482 catalytic residues [active] 359787005483 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 359787005484 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 359787005485 oligomer interface [polypeptide binding]; other site 359787005486 active site 359787005487 metal binding site [ion binding]; metal-binding site 359787005488 Predicted small secreted protein [Function unknown]; Region: COG5584 359787005489 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 359787005490 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 359787005491 Phosphotransferase enzyme family; Region: APH; pfam01636 359787005492 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 359787005493 substrate binding site [chemical binding]; other site 359787005494 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 359787005495 homodimer interface [polypeptide binding]; other site 359787005496 substrate-cofactor binding pocket; other site 359787005497 pyridoxal 5'-phosphate binding site [chemical binding]; other site 359787005498 catalytic residue [active] 359787005499 dipeptidase PepV; Reviewed; Region: PRK07318 359787005500 M20 Peptidase Xaa-His dipeptidase (PepV) degrades hydrophobic dipeptides; Region: M20_PepV; cd03888 359787005501 active site 359787005502 metal binding site [ion binding]; metal-binding site 359787005503 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 359787005504 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 359787005505 RNA binding surface [nucleotide binding]; other site 359787005506 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 359787005507 active site 359787005508 uracil binding [chemical binding]; other site 359787005509 MatE; Region: MatE; cl10513 359787005510 stage V sporulation protein B; Region: spore_V_B; TIGR02900 359787005511 MatE; Region: MatE; cl10513 359787005512 HI0933-like protein; Region: HI0933_like; pfam03486 359787005513 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787005514 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 359787005515 cytoskeletal protein RodZ; Provisional; Region: PRK10856 359787005516 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 359787005517 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 359787005518 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 359787005519 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 359787005520 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 359787005521 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 359787005522 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 359787005523 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 359787005524 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 359787005525 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 359787005526 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 359787005527 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 359787005528 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 359787005529 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 359787005530 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 359787005531 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 359787005532 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 359787005533 active site residue [active] 359787005534 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 359787005535 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 359787005536 HIGH motif; other site 359787005537 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 359787005538 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 359787005539 active site 359787005540 KMSKS motif; other site 359787005541 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 359787005542 tRNA binding surface [nucleotide binding]; other site 359787005543 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 359787005544 Major Facilitator Superfamily; Region: MFS_1; pfam07690 359787005545 putative substrate translocation pore; other site 359787005546 Predicted Fe-S oxidoreductase [General function prediction only]; Region: COG1242 359787005547 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787005548 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787005549 Helix-turn-helix domains; Region: HTH; cl00088 359787005550 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 359787005551 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 359787005552 Proline dehydrogenase; Region: Pro_dh; cl03282 359787005553 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 359787005554 homopentamer interface [polypeptide binding]; other site 359787005555 active site 359787005556 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 359787005557 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 359787005558 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 359787005559 dimerization interface [polypeptide binding]; other site 359787005560 active site 359787005561 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 359787005562 Lumazine binding domain; Region: Lum_binding; pfam00677 359787005563 Lumazine binding domain; Region: Lum_binding; pfam00677 359787005564 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 359787005565 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 359787005566 catalytic motif [active] 359787005567 Zn binding site [ion binding]; other site 359787005568 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 359787005569 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 359787005570 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787005571 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 359787005572 dimerization interface [polypeptide binding]; other site 359787005573 putative DNA binding site [nucleotide binding]; other site 359787005574 putative Zn2+ binding site [ion binding]; other site 359787005575 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 359787005576 arsenical pump membrane protein; Provisional; Region: PRK15445 359787005577 transmembrane helices; other site 359787005578 Beta- N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: LytD; COG4193 359787005579 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 359787005580 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 359787005581 Helix-turn-helix domains; Region: HTH; cl00088 359787005582 DNA binding residues [nucleotide binding] 359787005583 CAAX protease self-immunity; Region: Abi; cl00558 359787005584 Transaldolase-like fructose-6-phosphate aldolases (FSA) found in bacteria and archaea; Region: Transaldolase_FSA; cd00956 359787005585 active site 359787005586 intersubunit interactions; other site 359787005587 catalytic residue [active] 359787005588 CrcB-like protein; Region: CRCB; cl09114 359787005589 CrcB-like protein; Region: CRCB; cl09114 359787005590 Transposase domain (DUF772); Region: DUF772; cl15789 359787005591 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 359787005592 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 359787005593 active site 359787005594 catalytic tetrad [active] 359787005595 S-adenosylmethionine synthetase; Validated; Region: PRK05250 359787005596 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 359787005597 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 359787005598 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 359787005599 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 359787005600 active site 359787005601 substrate-binding site [chemical binding]; other site 359787005602 metal-binding site [ion binding] 359787005603 ATP binding site [chemical binding]; other site 359787005604 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 359787005605 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 359787005606 nucleoside triphosphatase YtkD; Region: nudix_YtkD; TIGR02705 359787005607 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 359787005608 nudix motif; other site 359787005609 Haemolytic domain; Region: Haemolytic; cl00506 359787005610 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 359787005611 o-succinylbenzoate synthase; Region: menC_lowGC/arch; TIGR01928 359787005612 metal binding site [ion binding]; metal-binding site 359787005613 substrate binding pocket [chemical binding]; other site 359787005614 O-succinylbenzoate-CoA ligase; Region: menE; TIGR01923 359787005615 AMP-binding enzyme; Region: AMP-binding; cl15778 359787005616 Excalibur calcium-binding domain; Region: Excalibur; cl05460 359787005617 Domain of unknown function (DUF4352); Region: DUF4352; pfam11611 359787005618 Protein of unknown function (DUF3969); Region: DUF3969; pfam13108 359787005619 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 359787005620 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 359787005621 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 359787005622 type I restriction system adenine methylase (hsdM); Region: hsdM; TIGR00497 359787005623 HsdM N-terminal domain; Region: HsdM_N; pfam12161 359787005624 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787005625 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 359787005626 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 359787005627 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 359787005628 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 359787005629 Domain of unknown function DUF1828; Region: DUF1828; pfam08861 359787005630 Domain of unknown function DUF1829; Region: DUF1829; pfam08862 359787005631 Leukocidin/Hemolysin toxin family; Region: Leukocidin; cl08468 359787005632 Leukocidin/Hemolysin toxin family; Region: Leukocidin; cl08468 359787005633 Domain of unknown function DUF1828; Region: DUF1828; pfam08861 359787005634 Domain of unknown function DUF1829; Region: DUF1829; pfam08862 359787005635 Domain of unknown function DUF1828; Region: DUF1828; pfam08861 359787005636 Domain of unknown function DUF1829; Region: DUF1829; pfam08862 359787005637 Staphylococcal/Streptococcal toxin, OB-fold domain; Region: Stap_Strp_toxin; pfam01123 359787005638 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 359787005639 Staphylococcal/Streptococcal toxin, OB-fold domain; Region: Stap_Strp_toxin; pfam01123 359787005640 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 359787005641 Staphylococcal/Streptococcal toxin, OB-fold domain; Region: Stap_Strp_toxin; pfam01123 359787005642 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 359787005643 Staphylococcal/Streptococcal toxin, OB-fold domain; Region: Stap_Strp_toxin; pfam01123 359787005644 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 359787005645 Staphylococcal/Streptococcal toxin, OB-fold domain; Region: Stap_Strp_toxin; pfam01123 359787005646 Staphylococcal/Streptococcal toxin, beta-grasp domain; Region: Stap_Strp_tox_C; pfam02876 359787005647 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 359787005648 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 359787005649 protoporphyrinogen oxidase; Reviewed; Region: PRK11883 359787005650 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787005651 ferrochelatase; Provisional; Region: PRK12435 359787005652 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 359787005653 C-terminal domain interface [polypeptide binding]; other site 359787005654 active site 359787005655 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 359787005656 active site 359787005657 N-terminal domain interface [polypeptide binding]; other site 359787005658 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 359787005659 methyltransferase, MtaA/CmuA family; Region: mtaA_cmuA; TIGR01463 359787005660 substrate binding site [chemical binding]; other site 359787005661 active site 359787005662 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 359787005663 Bacterial ABC transporter protein EcsB; Region: EcsB; cl11542 359787005664 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 359787005665 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 359787005666 Walker A/P-loop; other site 359787005667 ATP binding site [chemical binding]; other site 359787005668 Q-loop/lid; other site 359787005669 ABC transporter signature motif; other site 359787005670 Walker B; other site 359787005671 D-loop; other site 359787005672 H-loop/switch region; other site 359787005673 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 359787005674 HIT family signature motif; other site 359787005675 catalytic residue [active] 359787005676 YtxH-like protein; Region: YtxH; cl02079 359787005677 Protein of unknown function (DUF3267); Region: DUF3267; pfam11667 359787005678 peptidylprolyl isomerase; Reviewed; Region: prsA; PRK03095 359787005679 SurA N-terminal domain; Region: SurA_N_3; cl07813 359787005680 PPIC-type PPIASE domain; Region: Rotamase; cl08278 359787005681 3'-5' exoribonuclease YhaM; Provisional; Region: PRK13480 359787005682 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 359787005683 generic binding surface II; other site 359787005684 generic binding surface I; other site 359787005685 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 359787005686 Zn2+ binding site [ion binding]; other site 359787005687 Mg2+ binding site [ion binding]; other site 359787005688 Uncharacterized conserved protein [Function unknown]; Region: COG4717 359787005689 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 359787005690 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 359787005691 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 359787005692 active site 359787005693 metal binding site [ion binding]; metal-binding site 359787005694 DNA binding site [nucleotide binding] 359787005695 Protein of unknown function (DUF964); Region: DUF964; cl01483 359787005696 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 359787005697 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 359787005698 Transposase; Region: DDE_Tnp_ISL3; pfam01610 359787005699 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 359787005700 non-specific DNA binding site [nucleotide binding]; other site 359787005701 salt bridge; other site 359787005702 sequence-specific DNA binding site [nucleotide binding]; other site 359787005703 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 359787005704 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 359787005705 active site 359787005706 phosphorylation site [posttranslational modification] 359787005707 intermolecular recognition site; other site 359787005708 dimerization interface [polypeptide binding]; other site 359787005709 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 359787005710 DNA binding residues [nucleotide binding] 359787005711 dimerization interface [polypeptide binding]; other site 359787005712 GAF domain; Region: GAF_2; pfam13185 359787005713 GAF domain; Region: GAF; cl15785 359787005714 Histidine kinase; Region: HisKA_3; pfam07730 359787005715 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 359787005716 ATP binding site [chemical binding]; other site 359787005717 Mg2+ binding site [ion binding]; other site 359787005718 G-X-G motif; other site 359787005719 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 359787005720 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 359787005721 active site 359787005722 fumarate hydratase; Reviewed; Region: fumC; PRK00485 359787005723 Class II fumarases; Region: Fumarase_classII; cd01362 359787005724 active site 359787005725 tetramer interface [polypeptide binding]; other site 359787005726 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 359787005727 active site 359787005728 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 359787005729 Uncharacterized Fe-S protein [Energy production and conversion]; Region: COG1600 359787005730 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 359787005731 HEAT repeats; Region: HEAT_2; pfam13646 359787005732 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 359787005733 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 359787005734 Walker A/P-loop; other site 359787005735 ATP binding site [chemical binding]; other site 359787005736 Q-loop/lid; other site 359787005737 ABC transporter signature motif; other site 359787005738 Walker B; other site 359787005739 D-loop; other site 359787005740 H-loop/switch region; other site 359787005741 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 359787005742 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 359787005743 substrate binding pocket [chemical binding]; other site 359787005744 membrane-bound complex binding site; other site 359787005745 hinge residues; other site 359787005746 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 359787005747 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 359787005748 dimer interface [polypeptide binding]; other site 359787005749 conserved gate region; other site 359787005750 putative PBP binding loops; other site 359787005751 ABC-ATPase subunit interface; other site 359787005752 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 359787005753 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 359787005754 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 359787005755 Transposase; Region: DDE_Tnp_ISL3; pfam01610 359787005756 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 359787005757 metal binding site 2 [ion binding]; metal-binding site 359787005758 putative DNA binding helix; other site 359787005759 metal binding site 1 [ion binding]; metal-binding site 359787005760 dimer interface [polypeptide binding]; other site 359787005761 structural Zn2+ binding site [ion binding]; other site 359787005762 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 359787005763 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787005764 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 359787005765 catalytic triad [active] 359787005766 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK12389 359787005767 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 359787005768 inhibitor-cofactor binding pocket; inhibition site 359787005769 pyridoxal 5'-phosphate binding site [chemical binding]; other site 359787005770 catalytic residue [active] 359787005771 Predicted membrane protein [Function unknown]; Region: COG4129 359787005772 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 359787005773 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 359787005774 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 359787005775 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 359787005776 Walker A/P-loop; other site 359787005777 ATP binding site [chemical binding]; other site 359787005778 Q-loop/lid; other site 359787005779 ABC transporter signature motif; other site 359787005780 Walker B; other site 359787005781 D-loop; other site 359787005782 H-loop/switch region; other site 359787005783 Protein of unknown function (DUF402); Region: DUF402; cl00979 359787005784 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 359787005785 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 359787005786 minor groove reading motif; other site 359787005787 helix-hairpin-helix signature motif; other site 359787005788 substrate binding pocket [chemical binding]; other site 359787005789 active site 359787005790 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 359787005791 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 359787005792 DNA binding and oxoG recognition site [nucleotide binding] 359787005793 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 359787005794 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 359787005795 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 359787005796 Walker A/P-loop; other site 359787005797 ATP binding site [chemical binding]; other site 359787005798 Q-loop/lid; other site 359787005799 ABC transporter signature motif; other site 359787005800 Walker B; other site 359787005801 D-loop; other site 359787005802 H-loop/switch region; other site 359787005803 Protein of unknown function (DUF1811); Region: DUF1811; pfam08838 359787005804 RecX family; Region: RecX; cl00936 359787005805 Transglycosylase; Region: Transgly; cl07896 359787005806 intracellular protease, PfpI family; Region: PfpI; TIGR01382 359787005807 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 359787005808 proposed catalytic triad [active] 359787005809 conserved cys residue [active] 359787005810 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 359787005811 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 359787005812 FeS/SAM binding site; other site 359787005813 YfkB-like domain; Region: YfkB; pfam08756 359787005814 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 359787005815 Thermophilic metalloprotease (M29); Region: Peptidase_M29; pfam02073 359787005816 Protein of unknown function (DUF1128); Region: DUF1128; cl11553 359787005817 Low molecular weight phosphatase family; Region: LMWPc; cd00115 359787005818 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 359787005819 active site 359787005820 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 359787005821 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 359787005822 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 359787005823 active site 359787005824 phosphorylation site [posttranslational modification] 359787005825 intermolecular recognition site; other site 359787005826 dimerization interface [polypeptide binding]; other site 359787005827 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 359787005828 DNA binding residues [nucleotide binding] 359787005829 dimerization interface [polypeptide binding]; other site 359787005830 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 359787005831 Histidine kinase; Region: HisKA_3; pfam07730 359787005832 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 359787005833 ATP binding site [chemical binding]; other site 359787005834 Mg2+ binding site [ion binding]; other site 359787005835 G-X-G motif; other site 359787005836 Predicted membrane protein [Function unknown]; Region: COG4758 359787005837 Cell wall-active antibiotics response protein (DUF2154); Region: DUF2154; pfam09922 359787005838 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 359787005839 active site 359787005840 Predicted membrane protein [Function unknown]; Region: COG4129 359787005841 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 359787005842 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 359787005843 catalytic triad [active] 359787005844 UDP-N-acetylmuramyl tripeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurE; COG0769 359787005845 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 359787005846 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 359787005847 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 359787005848 Ferritin-like domain; Region: Ferritin; pfam00210 359787005849 ferroxidase diiron center [ion binding]; other site 359787005850 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 359787005851 active site 359787005852 substrate binding site [chemical binding]; other site 359787005853 catalytic site [active] 359787005854 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 359787005855 active site 359787005856 DNA polymerase IV; Validated; Region: PRK02406 359787005857 DNA binding site [nucleotide binding] 359787005858 TRAM domain; Region: TRAM; cl01282 359787005859 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 359787005860 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 359787005861 S-adenosylmethionine binding site [chemical binding]; other site 359787005862 putative lipid kinase; Reviewed; Region: PRK13337 359787005863 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 359787005864 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 359787005865 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 359787005866 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 359787005867 GatB domain; Region: GatB_Yqey; cl11497 359787005868 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 359787005869 Amidase; Region: Amidase; cl11426 359787005870 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 359787005871 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 359787005872 Sodium:solute symporter family; Region: SSF; cl00456 359787005873 CamS sex pheromone cAM373 precursor; Region: CamS; cl11554 359787005874 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 359787005875 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 359787005876 nucleotide binding pocket [chemical binding]; other site 359787005877 K-X-D-G motif; other site 359787005878 catalytic site [active] 359787005879 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 359787005880 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 359787005881 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 359787005882 Dimer interface [polypeptide binding]; other site 359787005883 BRCT sequence motif; other site 359787005884 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 359787005885 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 359787005886 Family description; Region: UvrD_C_2; cl15862 359787005887 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 359787005888 substrate binding site [chemical binding]; other site 359787005889 putative active site [active] 359787005890 dimer interface [polypeptide binding]; other site 359787005891 Helix-turn-helix domains; Region: HTH; cl00088 359787005892 adenylosuccinate lyase; Provisional; Region: PRK07492 359787005893 Adenylsuccinate lyase (ASL)_subgroup 1; Region: Adenylsuccinate_lyase_1; cd01360 359787005894 tetramer interface [polypeptide binding]; other site 359787005895 active site 359787005896 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 359787005897 Staphopain peptidase C47; Region: Peptidase_C47; pfam05543 359787005898 Staphostatin A; Region: Staphostatin_A; pfam09022 359787005899 NETI protein; Region: NETI; pfam14044 359787005900 hypothetical protein; Provisional; Region: PRK04164 359787005901 Uncharacterized protein conserved in bacteria (DUF2179); Region: DUF2179; cl10498 359787005902 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 359787005903 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 359787005904 homodimer interface [polypeptide binding]; other site 359787005905 NAD binding pocket [chemical binding]; other site 359787005906 ATP binding pocket [chemical binding]; other site 359787005907 Mg binding site [ion binding]; other site 359787005908 active-site loop [active] 359787005909 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 359787005910 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 359787005911 active site 359787005912 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 359787005913 active site 359787005914 dimer interface [polypeptide binding]; other site 359787005915 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 359787005916 Prephenate dehydratase; Region: PDT; pfam00800 359787005917 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 359787005918 putative L-Phe binding site [chemical binding]; other site 359787005919 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 359787005920 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 359787005921 transmembrane helices; other site 359787005922 Pectate lyase superfamily protein; Region: Pectate_lyase_3; pfam12708 359787005923 Isochorismatase family; Region: Isochorismatase; pfam00857 359787005924 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 359787005925 catalytic triad [active] 359787005926 conserved cis-peptide bond; other site 359787005927 putative manganese-dependent inorganic pyrophosphatase; Provisional; Region: PRK05427 359787005928 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 359787005929 DHHA2 domain; Region: DHHA2; pfam02833 359787005930 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 359787005931 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 359787005932 NAD(P) binding site [chemical binding]; other site 359787005933 catalytic residues [active] 359787005934 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 359787005935 YolD-like protein; Region: YolD; pfam08863 359787005936 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 359787005937 active site 359787005938 Domain of unknown function (DUF4097); Region: DUF4097; pfam13349 359787005939 Protein of unknown function (DUF1700); Region: DUF1700; cl01933 359787005940 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 359787005941 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 359787005942 Walker A/P-loop; other site 359787005943 ATP binding site [chemical binding]; other site 359787005944 Q-loop/lid; other site 359787005945 ABC transporter signature motif; other site 359787005946 Walker B; other site 359787005947 D-loop; other site 359787005948 H-loop/switch region; other site 359787005949 ABC-2 family transporter protein; Region: ABC2_membrane_5; pfam13346 359787005950 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 359787005951 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 359787005952 Walker A/P-loop; other site 359787005953 ATP binding site [chemical binding]; other site 359787005954 Q-loop/lid; other site 359787005955 ABC transporter signature motif; other site 359787005956 Walker B; other site 359787005957 D-loop; other site 359787005958 H-loop/switch region; other site 359787005959 Predicted transcriptional regulators [Transcription]; Region: COG1725 359787005960 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 359787005961 DNA-binding site [nucleotide binding]; DNA binding site 359787005962 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 359787005963 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 359787005964 pyridoxal 5'-phosphate binding site [chemical binding]; other site 359787005965 homodimer interface [polypeptide binding]; other site 359787005966 catalytic residue [active] 359787005967 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 359787005968 Staphylococcal complement inhibitor SCIN; Region: CompInhib_SCIN; pfam11546 359787005969 Chemotaxis-inhibiting protein CHIPS; Region: CHIPS; cl10100 359787005970 Staphylokinase/Streptokinase family; Region: Staphylokinase; pfam02821 359787005971 NlpC/P60 family; Region: NLPC_P60; cl11438 359787005972 Bacteriophage holin; Region: Phage_holin_1; cl02344 359787005973 Protein of unknown function (DUF2951); Region: DUF2951; pfam11166 359787005974 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 359787005975 rad50; Region: rad50; TIGR00606 359787005976 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 359787005977 Phage tail protein; Region: Sipho_tail; pfam05709 359787005978 Phage tail protein; Region: Sipho_tail; pfam05709 359787005979 Phage-related minor tail protein [Function unknown]; Region: COG5280 359787005980 Phage-related protein [Function unknown]; Region: COG5412 359787005981 Herpesvirus Glycoprotein B; Region: Glycoprotein_B; pfam00606 359787005982 Peptidase family M23; Region: Peptidase_M23; pfam01551 359787005983 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 359787005984 N-acetyl-D-glucosamine binding site [chemical binding]; other site 359787005985 catalytic residue [active] 359787005986 phage major tail protein, phi13 family; Region: maj_tail_phi13; TIGR01603 359787005987 Bacteriophage protein of unknown function (DUF646); Region: DUF646; cl12124 359787005988 Phage capsid family; Region: Phage_capsid; pfam05065 359787005989 Clp protease; Region: CLP_protease; pfam00574 359787005990 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_1; cd07016 359787005991 oligomer interface [polypeptide binding]; other site 359787005992 active site residues [active] 359787005993 phage portal protein, HK97 family; Region: portal_HK97; TIGR01537 359787005994 Phage-related protein [Function unknown]; Region: COG4695; cl01923 359787005995 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 359787005996 Phage Terminase; Region: Terminase_1; pfam03354 359787005997 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 359787005998 phage transcriptional activator, RinA family; Region: phage_rinA; TIGR01636 359787005999 Protein of unknown function (DUF1514); Region: DUF1514; pfam07438 359787006000 Transcriptional activator RinB; Region: RinB; pfam06116 359787006001 Protein of unknown function (DUF1381); Region: DUF1381; pfam07129 359787006002 dUTPase; Region: dUTPase_2; pfam08761 359787006003 Protein of unknown function (DUF1024); Region: DUF1024; pfam06260 359787006004 Phage Conserved Open Reading Frame 51; Region: Phage_Orf51; pfam06194 359787006005 Protein of unknwon function (DUF3310); Region: DUF3310; pfam11753 359787006006 PVL ORF-50-like family; Region: PVL_ORF50; pfam07768 359787006007 Endodeoxyribonuclease RusA; Region: RusA; cl01885 359787006008 Putative primosome component and related proteins [DNA replication, recombination, and repair]; Region: DnaD; COG3935 359787006009 Replication initiation and membrane attachment; Region: DnaB_2; cl12121 359787006010 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 359787006011 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 359787006012 dimer interface [polypeptide binding]; other site 359787006013 ssDNA binding site [nucleotide binding]; other site 359787006014 tetramer (dimer of dimers) interface [polypeptide binding]; other site 359787006015 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 359787006016 RecT family; Region: RecT; cl04285 359787006017 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 359787006018 Protein of unknown function (DUF1108); Region: DUF1108; pfam06531 359787006019 Hypothetical protein of unknown function (DUF2482); Region: DUF2482; pfam10655 359787006020 Protein of unknown function (DUF1270); Region: DUF1270; pfam06900 359787006021 Domain of unknown function (DUF771); Region: DUF771; cl09962 359787006022 Hypothetical protein (DUF2513); Region: DUF2513; pfam10711 359787006023 AntA/AntB antirepressor; Region: AntA; cl01430 359787006024 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 359787006025 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 359787006026 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 359787006027 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 359787006028 non-specific DNA binding site [nucleotide binding]; other site 359787006029 salt bridge; other site 359787006030 sequence-specific DNA binding site [nucleotide binding]; other site 359787006031 Predicted transcriptional regulator [Transcription]; Region: COG2932 359787006032 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 359787006033 Catalytic site [active] 359787006034 HIRAN domain; Region: HIRAN; cl07418 359787006035 PemK-like protein; Region: PemK; cl00995 359787006036 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 359787006037 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 359787006038 Int/Topo IB signature motif; other site 359787006039 Neutral sphingomyelinases (nSMase) catalyze the hydrolysis of sphingomyelin in biological membranes to ceramide and phosphorylcholine; Region: nSMase; cd09078 359787006040 putative catalytic site [active] 359787006041 phosphate binding site [ion binding]; other site 359787006042 metal binding site A [ion binding]; metal-binding site 359787006043 metal binding site C [ion binding]; metal-binding site 359787006044 metal binding site B [ion binding]; metal-binding site 359787006045 Leukocidin/Hemolysin toxin family; Region: Leukocidin; cl08468 359787006046 Leukocidin/Hemolysin toxin family; Region: Leukocidin; cl08468 359787006047 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08588 359787006048 Peptidase M20 acetylornithine deacetylase/succinyl-diaminopimelate desuccinylase (ArgE/DapE)-like; Region: M20_ArgE_DapE_like; cd08659 359787006049 metal binding site [ion binding]; metal-binding site 359787006050 dimer interface [polypeptide binding]; other site 359787006051 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 359787006052 Cation transport protein; Region: TrkH; cl10514 359787006053 Cation transport protein; Region: TrkH; cl10514 359787006054 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 359787006055 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 359787006056 ring oligomerisation interface [polypeptide binding]; other site 359787006057 ATP/Mg binding site [chemical binding]; other site 359787006058 stacking interactions; other site 359787006059 hinge regions; other site 359787006060 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 359787006061 oligomerisation interface [polypeptide binding]; other site 359787006062 mobile loop; other site 359787006063 roof hairpin; other site 359787006064 CAAX protease self-immunity; Region: Abi; cl00558 359787006065 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 359787006066 dimer interface [polypeptide binding]; other site 359787006067 FMN binding site [chemical binding]; other site 359787006068 Predicted amidohydrolase [General function prediction only]; Region: COG0388 359787006069 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_5; cd07583 359787006070 putative active site [active] 359787006071 catalytic triad [active] 359787006072 putative dimer interface [polypeptide binding]; other site 359787006073 delta-hemolysin; Provisional; Region: PRK14752 359787006074 Accessory gene regulator B; Region: AgrB; cl01873 359787006075 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 359787006076 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 359787006077 active site 359787006078 phosphorylation site [posttranslational modification] 359787006079 intermolecular recognition site; other site 359787006080 dimerization interface [polypeptide binding]; other site 359787006081 LytTr DNA-binding domain; Region: LytTR; cl04498 359787006082 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 359787006083 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 359787006084 putative substrate binding site [chemical binding]; other site 359787006085 putative ATP binding site [chemical binding]; other site 359787006086 sucrose-6-phosphate hydrolase; Region: scrB_fam; TIGR01322 359787006087 Glycosyl hydrolase family 32, beta-fructosidases; Region: GH32_B_Fructosidase; cd08996 359787006088 substrate binding [chemical binding]; other site 359787006089 active site 359787006090 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 359787006091 Transcriptional regulators [Transcription]; Region: PurR; COG1609 359787006092 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 359787006093 DNA binding site [nucleotide binding] 359787006094 domain linker motif; other site 359787006095 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 359787006096 dimerization interface [polypeptide binding]; other site 359787006097 ligand binding site [chemical binding]; other site 359787006098 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 359787006099 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 359787006100 CPxP motif; other site 359787006101 Sulphur transport; Region: Sulf_transp; cl01018 359787006102 Sulphur transport; Region: Sulf_transp; cl01018 359787006103 redox-sensing transcriptional repressor Rex; Provisional; Region: PRK05472 359787006104 Putative DNA-binding protein N-terminus; Region: Put_DNA-bind_N; pfam06971 359787006105 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787006106 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 359787006107 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 359787006108 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 359787006109 ABC transporter; Region: ABC_tran_2; pfam12848 359787006110 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 359787006111 Mismatch repair ATPase (MutS family) [DNA replication, recombination, and repair]; Region: MutS; COG0249 359787006112 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 359787006113 Walker A/P-loop; other site 359787006114 ATP binding site [chemical binding]; other site 359787006115 Q-loop/lid; other site 359787006116 ABC transporter signature motif; other site 359787006117 Walker B; other site 359787006118 D-loop; other site 359787006119 H-loop/switch region; other site 359787006120 UGMP family protein; Validated; Region: PRK09604 359787006121 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 359787006122 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 359787006123 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 359787006124 Coenzyme A binding pocket [chemical binding]; other site 359787006125 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 359787006126 Glycoprotease family; Region: Peptidase_M22; pfam00814 359787006127 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 359787006128 Dehydratase family; Region: ILVD_EDD; cl00340 359787006129 6-phosphogluconate dehydratase; Region: edd; TIGR01196 359787006130 acetolactate synthase catalytic subunit; Reviewed; Region: PRK07710 359787006131 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 359787006132 PYR/PP interface [polypeptide binding]; other site 359787006133 dimer interface [polypeptide binding]; other site 359787006134 TPP binding site [chemical binding]; other site 359787006135 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 359787006136 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 359787006137 TPP-binding site [chemical binding]; other site 359787006138 dimer interface [polypeptide binding]; other site 359787006139 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 359787006140 ketol-acid reductoisomerase; Provisional; Region: PRK05479 359787006141 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787006142 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 359787006143 2-isopropylmalate synthase; Validated; Region: PRK00915 359787006144 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 359787006145 active site 359787006146 catalytic residues [active] 359787006147 metal binding site [ion binding]; metal-binding site 359787006148 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 359787006149 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 359787006150 tartrate dehydrogenase; Provisional; Region: PRK08194 359787006151 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 359787006152 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 359787006153 substrate binding site [chemical binding]; other site 359787006154 ligand binding site [chemical binding]; other site 359787006155 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 359787006156 substrate binding site [chemical binding]; other site 359787006157 threonine dehydratase; Validated; Region: PRK08639 359787006158 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 359787006159 tetramer interface [polypeptide binding]; other site 359787006160 pyridoxal 5'-phosphate binding site [chemical binding]; other site 359787006161 catalytic residue [active] 359787006162 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 359787006163 putative Ile/Val binding site [chemical binding]; other site 359787006164 hypothetical protein; Provisional; Region: PRK04351 359787006165 SprT homologues; Region: SprT; cl01182 359787006166 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 359787006167 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 359787006168 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 359787006169 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 359787006170 RNA binding site [nucleotide binding]; other site 359787006171 RNA polymerase sigma factor SigB; Validated; Region: PRK08583 359787006172 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 359787006173 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 359787006174 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 359787006175 DNA binding residues [nucleotide binding] 359787006176 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 359787006177 Anti-sigma regulatory factor (Ser/Thr protein kinase) [Signal transduction mechanisms]; Region: RsbW; COG2172 359787006178 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 359787006179 anti sigma factor interaction site; other site 359787006180 regulatory phosphorylation site [posttranslational modification]; other site 359787006181 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 359787006182 Phosphoserine phosphatase RsbU, N-terminal domain; Region: RsbU_N; pfam08673 359787006183 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 359787006184 PemK-like protein; Region: PemK; cl00995 359787006185 Alanine racemase [Cell envelope biogenesis, outer membrane]; Region: Alr; COG0787 359787006186 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 359787006187 active site 359787006188 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 359787006189 dimer interface [polypeptide binding]; other site 359787006190 substrate binding site [chemical binding]; other site 359787006191 catalytic residues [active] 359787006192 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 359787006193 Bacterial PH domain; Region: DUF304; cl01348 359787006194 Predicted membrane protein [Function unknown]; Region: COG3428 359787006195 Bacterial PH domain; Region: DUF304; cl01348 359787006196 Bacterial PH domain; Region: DUF304; cl01348 359787006197 Bacterial PH domain; Region: DUF304; cl01348 359787006198 K+-transporting ATPase, c chain; Region: KdpC; cl00944 359787006199 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 359787006200 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 359787006201 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 359787006202 Potassium-transporting ATPase A subunit; Region: KdpA; cl00903 359787006203 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 359787006204 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 359787006205 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 359787006206 Ligand Binding Site [chemical binding]; other site 359787006207 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 359787006208 dimer interface [polypeptide binding]; other site 359787006209 phosphorylation site [posttranslational modification] 359787006210 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 359787006211 ATP binding site [chemical binding]; other site 359787006212 Mg2+ binding site [ion binding]; other site 359787006213 G-X-G motif; other site 359787006214 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 359787006215 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 359787006216 active site 359787006217 phosphorylation site [posttranslational modification] 359787006218 intermolecular recognition site; other site 359787006219 dimerization interface [polypeptide binding]; other site 359787006220 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 359787006221 DNA binding site [nucleotide binding] 359787006222 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 359787006223 Transposase; Region: DDE_Tnp_ISL3; pfam01610 359787006224 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 359787006225 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 359787006226 ATP binding site [chemical binding]; other site 359787006227 Mg++ binding site [ion binding]; other site 359787006228 motif III; other site 359787006229 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 359787006230 nucleotide binding region [chemical binding]; other site 359787006231 ATP-binding site [chemical binding]; other site 359787006232 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 359787006233 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 359787006234 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 359787006235 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 359787006236 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 359787006237 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 359787006238 ATP-grasp domain; Region: ATP-grasp_4; cl03087 359787006239 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 359787006240 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 359787006241 Staphylococcus aureus copper-sensitive operon repressor (CsoR), and related domains; this family was previously known as part of DUF156; Region: SaCsoR-like_DUF156; cd10152 359787006242 putative homotetramer interface [polypeptide binding]; other site 359787006243 putative homodimer interface [polypeptide binding]; other site 359787006244 allosteric switch controlling residues; other site 359787006245 putative metal binding site [ion binding]; other site 359787006246 putative homodimer-homodimer interface [polypeptide binding]; other site 359787006247 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 359787006248 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 359787006249 putative active site [active] 359787006250 catalytic site [active] 359787006251 catalytic domain repeat 2 of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_2; cd09112 359787006252 putative active site [active] 359787006253 catalytic site [active] 359787006254 Predicted HD superfamily hydrolase [General function prediction only]; Region: COG1418 359787006255 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 359787006256 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 359787006257 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 359787006258 thiamine phosphate binding site [chemical binding]; other site 359787006259 active site 359787006260 pyrophosphate binding site [ion binding]; other site 359787006261 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 359787006262 substrate binding site [chemical binding]; other site 359787006263 multimerization interface [polypeptide binding]; other site 359787006264 ATP binding site [chemical binding]; other site 359787006265 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 359787006266 dimer interface [polypeptide binding]; other site 359787006267 substrate binding site [chemical binding]; other site 359787006268 ATP binding site [chemical binding]; other site 359787006269 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 359787006270 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 359787006271 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 359787006272 dimer interface [polypeptide binding]; other site 359787006273 ssDNA binding site [nucleotide binding]; other site 359787006274 tetramer (dimer of dimers) interface [polypeptide binding]; other site 359787006275 YwpF-like protein; Region: YwpF; pfam14183 359787006276 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 359787006277 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 359787006278 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 359787006279 hinge; other site 359787006280 active site 359787006281 Protein of unknown function (DUF1146); Region: DUF1146; cl11486 359787006282 F0F1 ATP synthase subunit epsilon; Provisional; Region: atpC; PRK14735 359787006283 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 359787006284 ATP synthase, Delta/Epsilon chain, long alpha-helix domain; Region: ATP-synt_DE; pfam00401 359787006285 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 359787006286 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 359787006287 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 359787006288 alpha subunit interaction interface [polypeptide binding]; other site 359787006289 Walker A motif; other site 359787006290 ATP binding site [chemical binding]; other site 359787006291 Walker B motif; other site 359787006292 inhibitor binding site; inhibition site 359787006293 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 359787006294 ATP synthase; Region: ATP-synt; cl00365 359787006295 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 359787006296 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 359787006297 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 359787006298 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 359787006299 beta subunit interaction interface [polypeptide binding]; other site 359787006300 Walker A motif; other site 359787006301 ATP binding site [chemical binding]; other site 359787006302 Walker B motif; other site 359787006303 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 359787006304 Plant ATP synthase F0; Region: YMF19; cl07975 359787006305 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 359787006306 Plant ATP synthase F0; Region: YMF19; cl07975 359787006307 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 359787006308 ATP synthase subunit C; Region: ATP-synt_C; cl00466 359787006309 ATP synthase A chain; Region: ATP-synt_A; cl00413 359787006310 Bacterial ATP synthase I; Region: Bac_ATP_syn_I; pfam05468 359787006311 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 359787006312 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 359787006313 active site 359787006314 homodimer interface [polypeptide binding]; other site 359787006315 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 359787006316 active site 359787006317 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 359787006318 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 359787006319 dimer interface [polypeptide binding]; other site 359787006320 glycine-pyridoxal phosphate binding site [chemical binding]; other site 359787006321 active site 359787006322 folate binding site [chemical binding]; other site 359787006323 Protein of unknown function (DUF436); Region: DUF436; cl01860 359787006324 Low molecular weight phosphatase family; Region: LMWPc; cd00115 359787006325 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 359787006326 active site 359787006327 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 359787006328 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 359787006329 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 359787006330 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 359787006331 S-adenosylmethionine binding site [chemical binding]; other site 359787006332 peptide chain release factor 1; Validated; Region: prfA; PRK00591 359787006333 RF-1 domain; Region: RF-1; cl02875 359787006334 RF-1 domain; Region: RF-1; cl02875 359787006335 thymidine kinase; Provisional; Region: PRK04296 359787006336 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 359787006337 transcription termination factor Rho; Provisional; Region: rho; PRK09376 359787006338 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 359787006339 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 359787006340 RNA binding site [nucleotide binding]; other site 359787006341 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 359787006342 multimer interface [polypeptide binding]; other site 359787006343 Walker A motif; other site 359787006344 ATP binding site [chemical binding]; other site 359787006345 Walker B motif; other site 359787006346 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 359787006347 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 359787006348 NAD binding site [chemical binding]; other site 359787006349 catalytic residues [active] 359787006350 Helix-turn-helix domains; Region: HTH; cl00088 359787006351 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 359787006352 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 359787006353 hinge; other site 359787006354 active site 359787006355 hypothetical protein; Provisional; Region: PRK08185 359787006356 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 359787006357 intersubunit interface [polypeptide binding]; other site 359787006358 active site 359787006359 zinc binding site [ion binding]; other site 359787006360 Na+ binding site [ion binding]; other site 359787006361 Protein of unknown function (DUF2529); Region: DUF2529; pfam10740 359787006362 CTP synthetase; Validated; Region: pyrG; PRK05380 359787006363 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 359787006364 Catalytic site [active] 359787006365 active site 359787006366 UTP binding site [chemical binding]; other site 359787006367 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 359787006368 active site 359787006369 putative oxyanion hole; other site 359787006370 catalytic triad [active] 359787006371 DNA-directed RNA polymerase delta subunit; Region: RNA_pol_delta; cl01319 359787006372 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 359787006373 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 359787006374 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 359787006375 pantothenate kinase, eukaryotic/staphyloccocal type; Region: panK_eukar; TIGR00555 359787006376 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 359787006377 ATP-grasp domain; Region: ATP-grasp_4; cl03087 359787006378 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 359787006379 M20 Peptidase Aminoacylase 1-like protein 2-like, amidohydrolase subfamily; Region: M20_ACY1L2_like; cd05672 359787006380 metal binding site [ion binding]; metal-binding site 359787006381 S-Ribosylhomocysteinase (LuxS); Region: LuxS; cl00802 359787006382 Predicted membrane protein [Function unknown]; Region: COG4270 359787006383 pyrimidine-nucleoside phosphorylase; Reviewed; Region: PRK06078 359787006384 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 359787006385 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 359787006386 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 359787006387 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 359787006388 intersubunit interface [polypeptide binding]; other site 359787006389 active site 359787006390 catalytic residue [active] 359787006391 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 359787006392 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 359787006393 Ferritin-like domain; Region: Ferritin; pfam00210 359787006394 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 359787006395 dimerization interface [polypeptide binding]; other site 359787006396 DPS ferroxidase diiron center [ion binding]; other site 359787006397 ion pore; other site 359787006398 Protein of unknown function, DUF393; Region: DUF393; cl01136 359787006399 EVE domain; Region: EVE; cl00728 359787006400 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 359787006401 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 359787006402 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 359787006403 NADH(P)-binding; Region: NAD_binding_10; pfam13460 359787006404 NAD(P) binding site [chemical binding]; other site 359787006405 putative active site [active] 359787006406 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 359787006407 dimerization interface [polypeptide binding]; other site 359787006408 putative DNA binding site [nucleotide binding]; other site 359787006409 putative Zn2+ binding site [ion binding]; other site 359787006410 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 359787006411 Cation efflux family; Region: Cation_efflux; cl00316 359787006412 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 359787006413 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 359787006414 active site 359787006415 motif I; other site 359787006416 motif II; other site 359787006417 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 359787006418 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 359787006419 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 359787006420 Walker A/P-loop; other site 359787006421 ATP binding site [chemical binding]; other site 359787006422 Q-loop/lid; other site 359787006423 ABC transporter signature motif; other site 359787006424 Walker B; other site 359787006425 D-loop; other site 359787006426 H-loop/switch region; other site 359787006427 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 359787006428 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 359787006429 glutaminase active site [active] 359787006430 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 359787006431 dimer interface [polypeptide binding]; other site 359787006432 active site 359787006433 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 359787006434 dimer interface [polypeptide binding]; other site 359787006435 active site 359787006436 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 359787006437 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 359787006438 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 359787006439 active site 359787006440 P-loop; other site 359787006441 phosphorylation site [posttranslational modification] 359787006442 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 359787006443 Helix-turn-helix domains; Region: HTH; cl00088 359787006444 Helix-turn-helix domains; Region: HTH; cl00088 359787006445 PRD domain; Region: PRD; cl15445 359787006446 PRD domain; Region: PRD; cl15445 359787006447 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 359787006448 P-loop; other site 359787006449 active site 359787006450 phosphorylation site [posttranslational modification] 359787006451 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 359787006452 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 359787006453 active site 359787006454 phosphorylation site [posttranslational modification] 359787006455 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 359787006456 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 359787006457 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 359787006458 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 359787006459 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 359787006460 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 359787006461 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 359787006462 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 359787006463 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 359787006464 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 359787006465 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 359787006466 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 359787006467 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 359787006468 Domain of Unknown Function (DUF1542); Region: DUF1542; pfam07564 359787006469 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14316 359787006470 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 359787006471 active site 359787006472 substrate binding site [chemical binding]; other site 359787006473 metal binding site [ion binding]; metal-binding site 359787006474 YbbR-like protein; Region: YbbR; pfam07949 359787006475 YbbR-like protein; Region: YbbR; pfam07949 359787006476 TIGR00159 family protein; Region: TIGR00159 359787006477 DisA bacterial checkpoint controller nucleotide-binding; Region: DisA_N; pfam02457 359787006478 Arginase family; Region: Arginase; cl00306 359787006479 RecA-family ATPase [DNA replication, recombination, and repair]; Region: RepA; COG3598 359787006480 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 359787006481 Walker A motif; other site 359787006482 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 359787006483 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 359787006484 putative substrate translocation pore; other site 359787006485 Major Facilitator Superfamily; Region: MFS_1; pfam07690 359787006486 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 359787006487 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 359787006488 Haemolysin-III related; Region: HlyIII; cl03831 359787006489 UDPGlcNAc pyrophosphorylase catalayzes the synthesis of UDPGlcNAc; Region: UDPGlcNAc_PPase; cd04193 359787006490 substrate binding site; other site 359787006491 dimerization interface; other site 359787006492 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 359787006493 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 359787006494 Nucleoside recognition; Region: Gate; cl00486 359787006495 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 359787006496 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 359787006497 ABC-ATPase subunit interface; other site 359787006498 dimer interface [polypeptide binding]; other site 359787006499 putative PBP binding regions; other site 359787006500 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 359787006501 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 359787006502 ABC-ATPase subunit interface; other site 359787006503 dimer interface [polypeptide binding]; other site 359787006504 putative PBP binding regions; other site 359787006505 ABC-type Fe3+-citrate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FecB; COG4594 359787006506 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 359787006507 siderophore binding site; other site 359787006508 Predicted amino acid racemase [Amino acid transport and metabolism]; Region: COG3457 359787006509 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase-like 1; Region: PLPDE_III_AR_like_1; cd06815 359787006510 dimer interface [polypeptide binding]; other site 359787006511 active site 359787006512 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 359787006513 substrate binding site [chemical binding]; other site 359787006514 catalytic residue [active] 359787006515 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 359787006516 IucA / IucC family; Region: IucA_IucC; pfam04183 359787006517 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 359787006518 H+ Antiporter protein; Region: 2A0121; TIGR00900 359787006519 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 359787006520 putative substrate translocation pore; other site 359787006521 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 359787006522 IucA / IucC family; Region: IucA_IucC; pfam04183 359787006523 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 359787006524 Asp23 family; Region: Asp23; cl00574 359787006525 Small integral membrane protein (DUF2273); Region: DUF2273; cl11575 359787006526 BCCT family transporter; Region: BCCT; cl00569 359787006527 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 359787006528 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 359787006529 putative NAD(P) binding site [chemical binding]; other site 359787006530 dimer interface [polypeptide binding]; other site 359787006531 leukotriene B4 12-hydroxydehydrogenase/15-oxo-prostaglandin 13-reductase; Region: B4_12hDH; TIGR02825 359787006532 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787006533 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 359787006534 Glycosyl hydrolase family 1; Region: Glyco_hydro_1; cl01046 359787006535 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 359787006536 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 359787006537 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 359787006538 P-loop; other site 359787006539 active site 359787006540 phosphorylation site [posttranslational modification] 359787006541 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 359787006542 methionine cluster; other site 359787006543 active site 359787006544 phosphorylation site [posttranslational modification] 359787006545 metal binding site [ion binding]; metal-binding site 359787006546 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 359787006547 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 359787006548 tagatose-6-phosphate kinase; Region: lacC; TIGR01231 359787006549 putative substrate binding site [chemical binding]; other site 359787006550 putative ATP binding site [chemical binding]; other site 359787006551 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 359787006552 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 359787006553 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 359787006554 Helix-turn-helix domains; Region: HTH; cl00088 359787006555 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 359787006556 NAD-dependent deacetylase; Provisional; Region: PRK00481 359787006557 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 359787006558 NAD+ binding site [chemical binding]; other site 359787006559 substrate binding site [chemical binding]; other site 359787006560 putative Zn binding site [ion binding]; other site 359787006561 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 359787006562 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 359787006563 active site 359787006564 catalytic tetrad [active] 359787006565 Helix-Turn-Helix DNA binding domain of the MerR-like transcription regulators YyaN and YraB; Region: HTH_YyaN; cd01109 359787006566 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 359787006567 DNA binding residues [nucleotide binding] 359787006568 putative dimer interface [polypeptide binding]; other site 359787006569 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 359787006570 substrate binding site [chemical binding]; other site 359787006571 catalytic residues [active] 359787006572 Peptidase family M23; Region: Peptidase_M23; pfam01551 359787006573 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 359787006574 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 359787006575 active site 359787006576 motif I; other site 359787006577 motif II; other site 359787006578 MAP domain; Region: MAP; pfam03642 359787006579 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; cl01408 359787006580 acetolactate synthase; Reviewed; Region: PRK08617 359787006581 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 359787006582 PYR/PP interface [polypeptide binding]; other site 359787006583 dimer interface [polypeptide binding]; other site 359787006584 TPP binding site [chemical binding]; other site 359787006585 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 359787006586 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 359787006587 TPP-binding site [chemical binding]; other site 359787006588 Retron-type reverse transcriptase [DNA replication, recombination, and repair]; Region: COG3344 359787006589 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 359787006590 putative active site [active] 359787006591 putative NTP binding site [chemical binding]; other site 359787006592 putative nucleic acid binding site [nucleotide binding]; other site 359787006593 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 359787006594 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 359787006595 23S rRNA interface [nucleotide binding]; other site 359787006596 L3 interface [polypeptide binding]; other site 359787006597 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 359787006598 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 359787006599 dimerization interface 3.5A [polypeptide binding]; other site 359787006600 active site 359787006601 Cobalt transport protein; Region: CbiQ; cl00463 359787006602 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13646 359787006603 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 359787006604 Walker A/P-loop; other site 359787006605 ATP binding site [chemical binding]; other site 359787006606 Q-loop/lid; other site 359787006607 ABC transporter signature motif; other site 359787006608 Walker B; other site 359787006609 D-loop; other site 359787006610 H-loop/switch region; other site 359787006611 cobalt transporter ATP-binding subunit; Provisional; Region: cbiO; PRK13648 359787006612 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 359787006613 Walker A/P-loop; other site 359787006614 ATP binding site [chemical binding]; other site 359787006615 Q-loop/lid; other site 359787006616 ABC transporter signature motif; other site 359787006617 Walker B; other site 359787006618 D-loop; other site 359787006619 H-loop/switch region; other site 359787006620 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 359787006621 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 359787006622 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 359787006623 alphaNTD homodimer interface [polypeptide binding]; other site 359787006624 alphaNTD - beta interaction site [polypeptide binding]; other site 359787006625 alphaNTD - beta' interaction site [polypeptide binding]; other site 359787006626 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 359787006627 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 359787006628 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 359787006629 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 359787006630 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 359787006631 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 359787006632 rRNA binding site [nucleotide binding]; other site 359787006633 predicted 30S ribosome binding site; other site 359787006634 adenylate kinase; Reviewed; Region: adk; PRK00279 359787006635 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 359787006636 AMP-binding site [chemical binding]; other site 359787006637 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 359787006638 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 359787006639 SecY translocase; Region: SecY; pfam00344 359787006640 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 359787006641 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 359787006642 23S rRNA binding site [nucleotide binding]; other site 359787006643 ribosomal protein S5, bacterial/organelle type; Region: rpsE_bact; TIGR01021 359787006644 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 359787006645 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 359787006646 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 359787006647 5S rRNA interface [nucleotide binding]; other site 359787006648 L27 interface [polypeptide binding]; other site 359787006649 23S rRNA interface [nucleotide binding]; other site 359787006650 L5 interface [polypeptide binding]; other site 359787006651 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 359787006652 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 359787006653 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 359787006654 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 359787006655 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 359787006656 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 359787006657 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 359787006658 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 359787006659 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 359787006660 KOW motif; Region: KOW; cl00354 359787006661 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 359787006662 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 359787006663 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 359787006664 23S rRNA interface [nucleotide binding]; other site 359787006665 putative translocon interaction site; other site 359787006666 signal recognition particle (SRP54) interaction site; other site 359787006667 L23 interface [polypeptide binding]; other site 359787006668 trigger factor interaction site; other site 359787006669 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 359787006670 23S rRNA interface [nucleotide binding]; other site 359787006671 5S rRNA interface [nucleotide binding]; other site 359787006672 putative antibiotic binding site [chemical binding]; other site 359787006673 L25 interface [polypeptide binding]; other site 359787006674 L27 interface [polypeptide binding]; other site 359787006675 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 359787006676 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 359787006677 G-X-X-G motif; other site 359787006678 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 359787006679 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 359787006680 putative translocon binding site; other site 359787006681 protein-rRNA interface [nucleotide binding]; other site 359787006682 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 359787006683 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 359787006684 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 359787006685 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 359787006686 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 359787006687 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 359787006688 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 359787006689 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 359787006690 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 359787006691 DNA topoisomerase III; Provisional; Region: PRK07726 359787006692 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 359787006693 active site 359787006694 putative interdomain interaction site [polypeptide binding]; other site 359787006695 putative metal-binding site [ion binding]; other site 359787006696 putative nucleotide binding site [chemical binding]; other site 359787006697 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 359787006698 domain I; other site 359787006699 DNA binding groove [nucleotide binding] 359787006700 phosphate binding site [ion binding]; other site 359787006701 domain II; other site 359787006702 domain III; other site 359787006703 nucleotide binding site [chemical binding]; other site 359787006704 catalytic site [active] 359787006705 domain IV; other site 359787006706 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 359787006707 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 359787006708 Putative glucose uptake permease [Carbohydrate transport and metabolism]; Region: GlcU; COG4975 359787006709 L-rhamnose-proton symport protein (RhaT); Region: RhaT; cl05728 359787006710 Membrane transport protein; Region: Mem_trans; cl09117 359787006711 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 359787006712 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 359787006713 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 359787006714 Helix-turn-helix domains; Region: HTH; cl00088 359787006715 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 359787006716 Major Facilitator Superfamily; Region: MFS_1; pfam07690 359787006717 putative substrate translocation pore; other site 359787006718 Helix-turn-helix domains; Region: HTH; cl00088 359787006719 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 359787006720 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 359787006721 FeS/SAM binding site; other site 359787006722 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 359787006723 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 359787006724 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 359787006725 GTP binding site; other site 359787006726 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 359787006727 MoaE interaction surface [polypeptide binding]; other site 359787006728 MoeB interaction surface [polypeptide binding]; other site 359787006729 thiocarboxylated glycine; other site 359787006730 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 359787006731 MoaE homodimer interface [polypeptide binding]; other site 359787006732 MoaD interaction [polypeptide binding]; other site 359787006733 active site residues [active] 359787006734 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 359787006735 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 359787006736 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 359787006737 dimer interface [polypeptide binding]; other site 359787006738 putative functional site; other site 359787006739 putative MPT binding site; other site 359787006740 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 359787006741 trimer interface [polypeptide binding]; other site 359787006742 dimer interface [polypeptide binding]; other site 359787006743 putative active site [active] 359787006744 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 359787006745 MPT binding site; other site 359787006746 trimer interface [polypeptide binding]; other site 359787006747 thiamine/molybdopterin biosynthesis ThiF/MoeB-like protein; Validated; Region: PRK07688 359787006748 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 359787006749 ATP binding site [chemical binding]; other site 359787006750 substrate interface [chemical binding]; other site 359787006751 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 359787006752 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 359787006753 Walker A/P-loop; other site 359787006754 ATP binding site [chemical binding]; other site 359787006755 Q-loop/lid; other site 359787006756 ABC transporter signature motif; other site 359787006757 Walker B; other site 359787006758 D-loop; other site 359787006759 H-loop/switch region; other site 359787006760 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 359787006761 dimer interface [polypeptide binding]; other site 359787006762 conserved gate region; other site 359787006763 putative PBP binding loops; other site 359787006764 ABC-ATPase subunit interface; other site 359787006765 ABC-type molybdate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: ModA; COG0725 359787006766 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 359787006767 FdhD/NarQ family; Region: FdhD-NarQ; cl00659 359787006768 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 359787006769 Coenzyme A binding pocket [chemical binding]; other site 359787006770 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 359787006771 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 359787006772 active site 359787006773 dimerization interface [polypeptide binding]; other site 359787006774 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 359787006775 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 359787006776 intersubunit interface [polypeptide binding]; other site 359787006777 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 359787006778 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 359787006779 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 359787006780 Urea transporter; Region: UT; cl01829 359787006781 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 359787006782 alpha-gamma subunit interface [polypeptide binding]; other site 359787006783 beta-gamma subunit interface [polypeptide binding]; other site 359787006784 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 359787006785 gamma-beta subunit interface [polypeptide binding]; other site 359787006786 alpha-beta subunit interface [polypeptide binding]; other site 359787006787 urease subunit alpha; Reviewed; Region: ureC; PRK13207 359787006788 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 359787006789 subunit interactions [polypeptide binding]; other site 359787006790 active site 359787006791 flap region; other site 359787006792 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 359787006793 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 359787006794 dimer interface [polypeptide binding]; other site 359787006795 catalytic residues [active] 359787006796 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 359787006797 UreF; Region: UreF; pfam01730 359787006798 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 359787006799 UreD urease accessory protein; Region: UreD; cl00530 359787006800 Helix-turn-helix domains; Region: HTH; cl00088 359787006801 Helix-turn-helix domains; Region: HTH; cl00088 359787006802 Helix-turn-helix domains; Region: HTH; cl00088 359787006803 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 359787006804 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 359787006805 NlpC/P60 family; Region: NLPC_P60; cl11438 359787006806 Na+/H+ antiporter NhaC; Region: antiport_nhaC; TIGR00931 359787006807 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 359787006808 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787006809 NAD/NADP octopine/nopaline dehydrogenase, alpha-helical domain; Region: Octopine_DH; pfam02317 359787006810 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3296; cl15800 359787006811 NlpC/P60 family; Region: NLPC_P60; cl11438 359787006812 D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain; Region: 2-Hacid_dh; pfam00389 359787006813 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787006814 hypothetical protein; Provisional; Region: PRK06753 359787006815 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787006816 Beta- N-acetylglucosaminidase [Carbohydrate transport and metabolism]; Region: LytD; COG4193 359787006817 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 359787006818 Protein of unknown function (DUF1641); Region: DUF1641; cl01025 359787006819 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 359787006820 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 359787006821 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 359787006822 4Fe-4S binding domain; Region: Fer4; cl02805 359787006823 4Fe-4S binding domain; Region: Fer4; cl02805 359787006824 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 359787006825 [4Fe-4S] binding site [ion binding]; other site 359787006826 molybdopterin cofactor binding site; other site 359787006827 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 359787006828 molybdopterin cofactor binding site; other site 359787006829 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 359787006830 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 359787006831 active site 359787006832 Predicted transcriptional regulator [Transcription]; Region: COG2378 359787006833 Helix-turn-helix domains; Region: HTH; cl00088 359787006834 CAAX protease self-immunity; Region: Abi; cl00558 359787006835 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 359787006836 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 359787006837 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 359787006838 putative active site [active] 359787006839 putative transport protein YifK; Provisional; Region: PRK10746 359787006840 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 359787006841 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 359787006842 active site 359787006843 motif I; other site 359787006844 motif II; other site 359787006845 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 359787006846 Membrane transport protein; Region: Mem_trans; cl09117 359787006847 PTS system, alpha-glucoside-specific IIBC component; Region: PTS-IIBC-alpha; TIGR02005 359787006848 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 359787006849 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 359787006850 active site turn [active] 359787006851 phosphorylation site [posttranslational modification] 359787006852 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 359787006853 Transposase; Region: DDE_Tnp_ISL3; pfam01610 359787006854 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 359787006855 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 359787006856 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 359787006857 putative active site [active] 359787006858 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 359787006859 putative hydrophobic ligand binding site [chemical binding]; other site 359787006860 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 359787006861 oxidoreductase; Provisional; Region: PRK07985 359787006862 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787006863 NAD(P) binding site [chemical binding]; other site 359787006864 active site 359787006865 M20 Peptidase Aminoacyclase-1 YxeP-like proteins, including YxeP, YtnL, YjiB and HipO2; Region: M20_Acy1_YxeP_like; cd05669 359787006866 amidohydrolase; Region: amidohydrolases; TIGR01891 359787006867 metal binding site [ion binding]; metal-binding site 359787006868 dimer interface [polypeptide binding]; other site 359787006869 imidazolonepropionase; Validated; Region: PRK09356 359787006870 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 359787006871 active site 359787006872 urocanate hydratase; Provisional; Region: PRK05414 359787006873 Transcriptional regulator [Transcription]; Region: LysR; COG0583 359787006874 Helix-turn-helix domains; Region: HTH; cl00088 359787006875 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 359787006876 dimerization interface [polypeptide binding]; other site 359787006877 FosB, a fosfomycin resistance protein, catalyzes the Mg(II) dependent addition of L-cysteine to the epoxide ring of fosfomycin; Region: FosB; cd08363 359787006878 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 359787006879 putative active site [active] 359787006880 putative Mg binding site [ion binding]; other site 359787006881 Arginase family; Region: Arginase; cl00306 359787006882 CAAX protease self-immunity; Region: Abi; cl00558 359787006883 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 359787006884 tetramer (dimer of dimers) interface [polypeptide binding]; other site 359787006885 active site 359787006886 dimer interface [polypeptide binding]; other site 359787006887 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2258 359787006888 MOSC domain; Region: MOSC; pfam03473 359787006889 3-alpha domain; Region: 3-alpha; pfam03475 359787006890 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 359787006891 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 359787006892 active site 359787006893 catalytic residues [active] 359787006894 Uncharacterized BCR, YnfA/UPF0060 family; Region: UPF0060; cl00757 359787006895 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 359787006896 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 359787006897 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 359787006898 Walker A/P-loop; other site 359787006899 ATP binding site [chemical binding]; other site 359787006900 Q-loop/lid; other site 359787006901 ABC transporter signature motif; other site 359787006902 Walker B; other site 359787006903 D-loop; other site 359787006904 H-loop/switch region; other site 359787006905 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 359787006906 Protein of unknown function (DUF805); Region: DUF805; cl01224 359787006907 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 359787006908 active site 359787006909 DNA binding site [nucleotide binding] 359787006910 Sodium/glutamate symporter; Region: Glt_symporter; pfam03616 359787006911 isopentenyl pyrophosphate isomerase; Provisional; Region: PRK05437 359787006912 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 359787006913 homotetramer interface [polypeptide binding]; other site 359787006914 FMN binding site [chemical binding]; other site 359787006915 homodimer contacts [polypeptide binding]; other site 359787006916 putative active site [active] 359787006917 putative substrate binding site [chemical binding]; other site 359787006918 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 359787006919 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 359787006920 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 359787006921 active site 359787006922 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 359787006923 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 359787006924 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 359787006925 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 359787006926 putative substrate translocation pore; other site 359787006927 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 359787006928 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 359787006929 E3 interaction surface; other site 359787006930 lipoyl attachment site [posttranslational modification]; other site 359787006931 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 359787006932 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 359787006933 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 359787006934 putative substrate translocation pore; other site 359787006935 Predicted membrane protein [Function unknown]; Region: COG4640 359787006936 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 359787006937 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 359787006938 Helix-turn-helix domains; Region: HTH; cl00088 359787006939 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 359787006940 putative active site [active] 359787006941 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 359787006942 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 359787006943 Walker A/P-loop; other site 359787006944 ATP binding site [chemical binding]; other site 359787006945 Q-loop/lid; other site 359787006946 ABC transporter signature motif; other site 359787006947 Walker B; other site 359787006948 D-loop; other site 359787006949 H-loop/switch region; other site 359787006950 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 359787006951 FtsX-like permease family; Region: FtsX; cl15850 359787006952 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 359787006953 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 359787006954 active site 359787006955 phosphorylation site [posttranslational modification] 359787006956 intermolecular recognition site; other site 359787006957 dimerization interface [polypeptide binding]; other site 359787006958 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 359787006959 DNA binding site [nucleotide binding] 359787006960 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 359787006961 dimerization interface [polypeptide binding]; other site 359787006962 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 359787006963 dimer interface [polypeptide binding]; other site 359787006964 phosphorylation site [posttranslational modification] 359787006965 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 359787006966 ATP binding site [chemical binding]; other site 359787006967 Mg2+ binding site [ion binding]; other site 359787006968 G-X-G motif; other site 359787006969 LytTr DNA-binding domain; Region: LytTR; cl04498 359787006970 Protein of unknown function (DUF3021); Region: DUF3021; pfam11457 359787006971 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787006972 Predicted dehydrogenase [General function prediction only]; Region: COG0579 359787006973 L-lactate permease; Region: Lactate_perm; cl00701 359787006974 glycolate transporter; Provisional; Region: PRK09695 359787006975 Putative glycosyl/glycerophosphate transferases involved in teichoic acid biosynthesis TagF/TagB/EpsJ/RodC [Cell envelope biogenesis, outer membrane]; Region: TagB; COG1887 359787006976 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 359787006977 Coenzyme A binding pocket [chemical binding]; other site 359787006978 pseudaminic acid biosynthesis N-acetyl transferase; Region: PseH; TIGR03585 359787006979 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787006980 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 359787006981 NAD(P) binding site [chemical binding]; other site 359787006982 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 359787006983 Coenzyme A binding pocket [chemical binding]; other site 359787006984 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 359787006985 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787006986 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 359787006987 Protein of unknown function (DUF2871); Region: DUF2871; pfam11070 359787006988 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 359787006989 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 359787006990 ABC-2 type transporter; Region: ABC2_membrane; cl11417 359787006991 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 359787006992 Transcriptional regulator C-terminal region; Region: TetR_C_8; pfam14278 359787006993 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 359787006994 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 359787006995 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 359787006996 active site turn [active] 359787006997 phosphorylation site [posttranslational modification] 359787006998 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 359787006999 Protein of unknown function (DUF1722); Region: DUF1722; cl01284 359787007000 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 359787007001 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 359787007002 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 359787007003 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 359787007004 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 359787007005 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 359787007006 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 359787007007 Protein of unknown function (DUF3139); Region: DUF3139; pfam11337 359787007008 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 359787007009 Helix-turn-helix domains; Region: HTH; cl00088 359787007010 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 359787007011 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 359787007012 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 359787007013 putative substrate translocation pore; other site 359787007014 Predicted Zn-dependent protease (DUF2268); Region: DUF2268; cl02316 359787007015 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 359787007016 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 359787007017 DNA binding residues [nucleotide binding] 359787007018 dimer interface [polypeptide binding]; other site 359787007019 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 359787007020 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 359787007021 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 359787007022 active site 359787007023 phosphorylation site [posttranslational modification] 359787007024 intermolecular recognition site; other site 359787007025 dimerization interface [polypeptide binding]; other site 359787007026 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 359787007027 DNA binding residues [nucleotide binding] 359787007028 dimerization interface [polypeptide binding]; other site 359787007029 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 359787007030 Histidine kinase; Region: HisKA_3; pfam07730 359787007031 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 359787007032 ATP binding site [chemical binding]; other site 359787007033 Mg2+ binding site [ion binding]; other site 359787007034 G-X-G motif; other site 359787007035 GAF domain; Region: GAF; cl15785 359787007036 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 359787007037 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 359787007038 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 359787007039 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 359787007040 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 359787007041 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 359787007042 [2Fe-2S] cluster binding site [ion binding]; other site 359787007043 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 359787007044 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 359787007045 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 359787007046 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 359787007047 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 359787007048 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 359787007049 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 359787007050 putative active site [active] 359787007051 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 359787007052 active site 359787007053 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 359787007054 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 359787007055 Coenzyme A binding pocket [chemical binding]; other site 359787007056 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 359787007057 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 359787007058 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 359787007059 putative hydrophobic ligand binding site [chemical binding]; other site 359787007060 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 359787007061 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 359787007062 intersubunit interface [polypeptide binding]; other site 359787007063 YodA lipocalin-like domain; Region: YodA; cl01365 359787007064 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 359787007065 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 359787007066 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 359787007067 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 359787007068 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 359787007069 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 359787007070 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 359787007071 Walker A/P-loop; other site 359787007072 ATP binding site [chemical binding]; other site 359787007073 Q-loop/lid; other site 359787007074 ABC transporter signature motif; other site 359787007075 Walker B; other site 359787007076 D-loop; other site 359787007077 H-loop/switch region; other site 359787007078 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 359787007079 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 359787007080 dimer interface [polypeptide binding]; other site 359787007081 conserved gate region; other site 359787007082 putative PBP binding loops; other site 359787007083 ABC-ATPase subunit interface; other site 359787007084 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 359787007085 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 359787007086 substrate binding pocket [chemical binding]; other site 359787007087 membrane-bound complex binding site; other site 359787007088 hinge residues; other site 359787007089 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 359787007090 Major Facilitator Superfamily; Region: MFS_1; pfam07690 359787007091 putative substrate translocation pore; other site 359787007092 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 359787007093 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 359787007094 catalytic core [active] 359787007095 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 359787007096 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 359787007097 Cation efflux family; Region: Cation_efflux; cl00316 359787007098 B domain; Region: B; pfam02216 359787007099 B domain; Region: B; pfam02216 359787007100 C3 binding domain 4 of IgG-bind protein SBI; Region: Sbi-IV; pfam11621 359787007101 Leukocidin/Hemolysin toxin family; Region: Leukocidin; cl08468 359787007102 Leukocidin/Hemolysin toxin family; Region: Leukocidin; cl08468 359787007103 Leukocidin/Hemolysin toxin family; Region: Leukocidin; cl08468 359787007104 6-carboxyhexanoate--CoA ligase; Region: BioW; cl00625 359787007105 Pimeloyl-CoA synthetase [Coenzyme metabolism]; Region: BioW; COG1424 359787007106 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 359787007107 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 359787007108 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 359787007109 catalytic residue [active] 359787007110 biotin synthase; Validated; Region: PRK06256 359787007111 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 359787007112 FeS/SAM binding site; other site 359787007113 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 359787007114 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 359787007115 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 359787007116 inhibitor-cofactor binding pocket; inhibition site 359787007117 pyridoxal 5'-phosphate binding site [chemical binding]; other site 359787007118 catalytic residue [active] 359787007119 CobQ/CobB/MinD/ParA nucleotide binding domain; Region: CbiA; pfam01656 359787007120 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 359787007121 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 359787007122 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 359787007123 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 359787007124 Walker A/P-loop; other site 359787007125 ATP binding site [chemical binding]; other site 359787007126 Q-loop/lid; other site 359787007127 ABC transporter signature motif; other site 359787007128 Walker B; other site 359787007129 D-loop; other site 359787007130 H-loop/switch region; other site 359787007131 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 359787007132 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 359787007133 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 359787007134 Walker A/P-loop; other site 359787007135 ATP binding site [chemical binding]; other site 359787007136 Q-loop/lid; other site 359787007137 ABC transporter signature motif; other site 359787007138 Walker B; other site 359787007139 D-loop; other site 359787007140 H-loop/switch region; other site 359787007141 GtrA-like protein; Region: GtrA; cl00971 359787007142 Glycerate kinase family; Region: Gly_kinase; cl00841 359787007143 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 359787007144 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 359787007145 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 359787007146 putative substrate translocation pore; other site 359787007147 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 359787007148 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 359787007149 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 359787007150 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 359787007151 active site 359787007152 metal binding site [ion binding]; metal-binding site 359787007153 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 359787007154 Spore germination protein; Region: Spore_permease; cl15802 359787007155 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 359787007156 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 359787007157 Amino acid permease; Region: AA_permease_2; pfam13520 359787007158 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 359787007159 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 359787007160 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787007161 NAD(P) binding site [chemical binding]; other site 359787007162 active site 359787007163 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 359787007164 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787007165 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 359787007166 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 359787007167 putative substrate translocation pore; other site 359787007168 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 359787007169 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 359787007170 NMT1-like family; Region: NMT1_2; cl15260 359787007171 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 359787007172 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 359787007173 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 359787007174 glycine betaine/L-proline transport ATP binding subunit; Region: proV; TIGR01186 359787007175 Walker A/P-loop; other site 359787007176 ATP binding site [chemical binding]; other site 359787007177 Q-loop/lid; other site 359787007178 ABC transporter signature motif; other site 359787007179 Walker B; other site 359787007180 D-loop; other site 359787007181 H-loop/switch region; other site 359787007182 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 359787007183 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 359787007184 Protein of unknown function (DUF419); Region: DUF419; cl15265 359787007185 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 359787007186 amino acid transporter; Region: 2A0306; TIGR00909 359787007187 Spore germination protein; Region: Spore_permease; cl15802 359787007188 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 359787007189 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 359787007190 substrate binding pocket [chemical binding]; other site 359787007191 catalytic triad [active] 359787007192 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 359787007193 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 359787007194 putative substrate translocation pore; other site 359787007195 Uncharacterized protein family (UPF0014); Region: UPF0014; cl00424 359787007196 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4619 359787007197 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 359787007198 Walker A/P-loop; other site 359787007199 ATP binding site [chemical binding]; other site 359787007200 Q-loop/lid; other site 359787007201 ABC transporter signature motif; other site 359787007202 Walker B; other site 359787007203 D-loop; other site 359787007204 H-loop/switch region; other site 359787007205 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 359787007206 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 359787007207 oligomer interface [polypeptide binding]; other site 359787007208 active site 359787007209 metal binding site [ion binding]; metal-binding site 359787007210 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 359787007211 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 359787007212 Protein of unknown function (DUF1307); Region: DUF1307; cl01981 359787007213 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 359787007214 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 359787007215 active site 359787007216 FMN binding site [chemical binding]; other site 359787007217 substrate binding site [chemical binding]; other site 359787007218 3Fe-4S cluster binding site [ion binding]; other site 359787007219 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 359787007220 Major Facilitator Superfamily; Region: MFS_1; pfam07690 359787007221 putative substrate translocation pore; other site 359787007222 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 359787007223 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 359787007224 Walker A/P-loop; other site 359787007225 ATP binding site [chemical binding]; other site 359787007226 Q-loop/lid; other site 359787007227 ABC transporter signature motif; other site 359787007228 Walker B; other site 359787007229 D-loop; other site 359787007230 H-loop/switch region; other site 359787007231 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 359787007232 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 359787007233 Walker A/P-loop; other site 359787007234 ATP binding site [chemical binding]; other site 359787007235 Q-loop/lid; other site 359787007236 ABC transporter signature motif; other site 359787007237 Walker B; other site 359787007238 D-loop; other site 359787007239 H-loop/switch region; other site 359787007240 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 359787007241 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 359787007242 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 359787007243 dimer interface [polypeptide binding]; other site 359787007244 conserved gate region; other site 359787007245 ABC-ATPase subunit interface; other site 359787007246 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 359787007247 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 359787007248 dimer interface [polypeptide binding]; other site 359787007249 conserved gate region; other site 359787007250 putative PBP binding loops; other site 359787007251 ABC-ATPase subunit interface; other site 359787007252 The substrate-binding component of an ABC-type nickel import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA; cd08489 359787007253 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 359787007254 substrate binding site [chemical binding]; other site 359787007255 Uncharacterized protein conserved in bacteria (DUF2338); Region: DUF2338; pfam10100 359787007256 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787007257 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 359787007258 Diaminopimelate epimerase [Amino acid transport and metabolism]; Region: DapF; COG0253 359787007259 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 359787007260 short chain dehydrogenase; Validated; Region: PRK08589 359787007261 classical (c) SDRs; Region: SDR_c; cd05233 359787007262 NAD(P) binding site [chemical binding]; other site 359787007263 active site 359787007264 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 359787007265 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 359787007266 Uncharacterized conserved protein [Function unknown]; Region: COG2128 359787007267 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 359787007268 Protein of unknown function (DUF1433); Region: DUF1433; pfam07252 359787007269 Protein of unknown function (DUF1433); Region: DUF1433; pfam07252 359787007270 Protein of unknown function (DUF1433); Region: DUF1433; pfam07252 359787007271 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 359787007272 classical (c) SDRs; Region: SDR_c; cd05233 359787007273 NAD(P) binding site [chemical binding]; other site 359787007274 active site 359787007275 Domain of unknown function (DUF1413); Region: DUF1413; pfam07205 359787007276 Protein of unknown function, DUF576; Region: DUF576; cl04553 359787007277 Protein of unknown function, DUF576; Region: DUF576; cl04553 359787007278 Protein of unknown function, DUF576; Region: DUF576; cl04553 359787007279 Protein of unknown function, DUF576; Region: DUF576; cl04553 359787007280 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 359787007281 PLD-like domain; Region: PLDc_2; pfam13091 359787007282 putative homodimer interface [polypeptide binding]; other site 359787007283 putative active site [active] 359787007284 catalytic site [active] 359787007285 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 359787007286 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 359787007287 ATP binding site [chemical binding]; other site 359787007288 putative Mg++ binding site [ion binding]; other site 359787007289 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 359787007290 nucleotide binding region [chemical binding]; other site 359787007291 ATP-binding site [chemical binding]; other site 359787007292 Domain of unknown function (DUF3427); Region: DUF3427; pfam11907 359787007293 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 359787007294 active site 359787007295 8-oxo-dGMP binding site [chemical binding]; other site 359787007296 nudix motif; other site 359787007297 metal binding site [ion binding]; metal-binding site 359787007298 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 359787007299 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 359787007300 active site 359787007301 substrate binding site [chemical binding]; other site 359787007302 metal binding site [ion binding]; metal-binding site 359787007303 H+ Antiporter protein; Region: 2A0121; TIGR00900 359787007304 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 359787007305 legume lectins; Region: lectin_L-type; cl14058 359787007306 homotetramer interaction site [polypeptide binding]; other site 359787007307 carbohydrate binding site [chemical binding]; other site 359787007308 metal binding site [ion binding]; metal-binding site 359787007309 G5 domain; Region: G5; pfam07501 359787007310 G5 domain; Region: G5; pfam07501 359787007311 G5 domain; Region: G5; pfam07501 359787007312 G5 domain; Region: G5; pfam07501 359787007313 pullulanase, extracellular, Gram-positive; Region: pullulan_Gpos; TIGR02102 359787007314 Helix-turn-helix domains; Region: HTH; cl00088 359787007315 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 359787007316 Helix-turn-helix domains; Region: HTH; cl00088 359787007317 Helix-turn-helix domains; Region: HTH; cl00088 359787007318 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 359787007319 active site 359787007320 tetramer interface; other site 359787007321 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 359787007322 C-terminus of bacterial fibrinogen-binding adhesin; Region: SdrG_C_C; pfam10425 359787007323 Fibronectin binding repeat; Region: Fn_bind; pfam02986 359787007324 Fibronectin binding repeat; Region: Fn_bind; pfam02986 359787007325 Gram positive anchor; Region: Gram_pos_anchor; cl15427 359787007326 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 359787007327 ribonuclease E; Reviewed; Region: rne; PRK10811 359787007328 C-terminus of bacterial fibrinogen-binding adhesin; Region: SdrG_C_C; pfam10425 359787007329 Fibronectin binding repeat; Region: Fn_bind; pfam02986 359787007330 Gram positive anchor; Region: Gram_pos_anchor; cl15427 359787007331 GntP family permease; Region: GntP_permease; pfam02447 359787007332 Na+-H+ antiporter family; Region: Na_H_antiport_2; cl15264 359787007333 gluconate kinase, FGGY type; Region: gntK_FGGY; TIGR01314 359787007334 gluconate kinases; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_GntK; cd07770 359787007335 N- and C-terminal domain interface [polypeptide binding]; other site 359787007336 putative active site [active] 359787007337 catalytic site [active] 359787007338 metal binding site [ion binding]; metal-binding site 359787007339 carbohydrate binding site [chemical binding]; other site 359787007340 ATP binding site [chemical binding]; other site 359787007341 Transcriptional regulators [Transcription]; Region: GntR; COG1802 359787007342 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 359787007343 DNA-binding site [nucleotide binding]; DNA binding site 359787007344 FCD domain; Region: FCD; cl11656 359787007345 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 359787007346 DNA binding residues [nucleotide binding] 359787007347 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 359787007348 synthetase active site [active] 359787007349 NTP binding site [chemical binding]; other site 359787007350 metal binding site [ion binding]; metal-binding site 359787007351 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4876 359787007352 Predicted membrane protein [Function unknown]; Region: COG1289 359787007353 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 359787007354 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 359787007355 D-galactonate transporter; Region: 2A0114; TIGR00893 359787007356 putative substrate translocation pore; other site 359787007357 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 359787007358 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 359787007359 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 359787007360 Walker A/P-loop; other site 359787007361 ATP binding site [chemical binding]; other site 359787007362 Q-loop/lid; other site 359787007363 ABC transporter signature motif; other site 359787007364 Walker B; other site 359787007365 D-loop; other site 359787007366 H-loop/switch region; other site 359787007367 ABC-2 type transporter; Region: ABC2_membrane; cl11417 359787007368 Firmicute fructose-1,6-bisphosphatase; Region: FBPase_2; pfam06874 359787007369 Uncharacterized membrane protein [Function unknown]; Region: COG3949 359787007370 Predicted esterase [General function prediction only]; Region: COG0400 359787007371 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 359787007372 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 359787007373 Zn binding site [ion binding]; other site 359787007374 C-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_C_like; cd08347 359787007375 Zn binding site [ion binding]; other site 359787007376 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 359787007377 Helix-turn-helix domains; Region: HTH; cl00088 359787007378 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 359787007379 Predicted ring-cleavage extradiol dioxygenase [General function prediction only]; Region: COG2514 359787007380 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 359787007381 putative metal binding site [ion binding]; other site 359787007382 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 359787007383 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 359787007384 dimer interface [polypeptide binding]; other site 359787007385 FMN binding site [chemical binding]; other site 359787007386 D-lactate dehydrogenase; Provisional; Region: PRK12480 359787007387 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787007388 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 359787007389 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 359787007390 active site 359787007391 motif I; other site 359787007392 motif II; other site 359787007393 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 359787007394 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 359787007395 Walker A/P-loop; other site 359787007396 ATP binding site [chemical binding]; other site 359787007397 Q-loop/lid; other site 359787007398 ABC transporter signature motif; other site 359787007399 Walker B; other site 359787007400 D-loop; other site 359787007401 H-loop/switch region; other site 359787007402 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 359787007403 active site 359787007404 catalytic site [active] 359787007405 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 359787007406 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 359787007407 Coenzyme A binding pocket [chemical binding]; other site 359787007408 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 359787007409 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 359787007410 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 359787007411 L-serine deaminase [Amino acid transport and metabolism]; Region: SdaA; COG1760 359787007412 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 359787007413 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 359787007414 EamA-like transporter family; Region: EamA; cl01037 359787007415 EamA-like transporter family; Region: EamA; cl01037 359787007416 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 359787007417 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 359787007418 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 359787007419 catalytic residues [active] 359787007420 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 359787007421 active site 359787007422 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 359787007423 PTS system, glucose-specific IIBC component; Region: PTS-II-BC-glcB; TIGR02002 359787007424 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 359787007425 active site turn [active] 359787007426 phosphorylation site [posttranslational modification] 359787007427 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 359787007428 HPr interaction site; other site 359787007429 glycerol kinase (GK) interaction site [polypeptide binding]; other site 359787007430 active site 359787007431 phosphorylation site [posttranslational modification] 359787007432 pyruvate oxidase; Provisional; Region: PRK08611 359787007433 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 359787007434 PYR/PP interface [polypeptide binding]; other site 359787007435 tetramer interface [polypeptide binding]; other site 359787007436 dimer interface [polypeptide binding]; other site 359787007437 TPP binding site [chemical binding]; other site 359787007438 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 359787007439 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 359787007440 TPP-binding site [chemical binding]; other site 359787007441 LrgB-like family; Region: LrgB; cl00596 359787007442 LrgA family; Region: LrgA; cl00608 359787007443 Transcriptional regulator [Transcription]; Region: LysR; COG0583 359787007444 Helix-turn-helix domains; Region: HTH; cl00088 359787007445 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 359787007446 putative dimerization interface [polypeptide binding]; other site 359787007447 Protein of unknown function (DUF1250); Region: DUF1250; cl11485 359787007448 NlpC/P60 family; Region: NLPC_P60; cl11438 359787007449 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 359787007450 homodimer interface [polypeptide binding]; other site 359787007451 NAD binding site [chemical binding]; other site 359787007452 catalytic residues [active] 359787007453 substrate binding pocket [chemical binding]; other site 359787007454 flexible flap; other site 359787007455 '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 359787007456 3-hydroxy-3-methylglutaryl CoA synthase, prokaryotic clade; Region: HMG-CoA-S_prok; TIGR01835 359787007457 dimer interface [polypeptide binding]; other site 359787007458 active site 359787007459 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 359787007460 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 359787007461 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 359787007462 DNA binding site [nucleotide binding] 359787007463 active site 359787007464 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 359787007465 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 359787007466 Walker A motif; other site 359787007467 ATP binding site [chemical binding]; other site 359787007468 Walker B motif; other site 359787007469 arginine finger; other site 359787007470 UvrB/uvrC motif; Region: UVR; pfam02151 359787007471 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 359787007472 Walker A motif; other site 359787007473 ATP binding site [chemical binding]; other site 359787007474 Walker B motif; other site 359787007475 arginine finger; other site 359787007476 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 359787007477 Virus attachment protein p12 family; Region: P12; pfam12669 359787007478 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 359787007479 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 359787007480 G1 box; other site 359787007481 GTP/Mg2+ binding site [chemical binding]; other site 359787007482 Switch I region; other site 359787007483 G2 box; other site 359787007484 G3 box; other site 359787007485 Switch II region; other site 359787007486 G4 box; other site 359787007487 G5 box; other site 359787007488 Nucleoside recognition; Region: Gate; cl00486 359787007489 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 359787007490 Nucleoside recognition; Region: Gate; cl00486 359787007491 FeoA domain; Region: FeoA; cl00838 359787007492 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 359787007493 Ammonia monooxygenase; Region: AMO; cl03602 359787007494 probable dihydroxyacetone kinase regulator; Region: DHAK_reg; TIGR02366 359787007495 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 359787007496 Delta(1)-pyrroline-5-carboxylate dehydrogenase, RocA; Region: ALDH_PutA-P5CDH-RocA; cd07124 359787007497 Glutamate binding site [chemical binding]; other site 359787007498 homodimer interface [polypeptide binding]; other site 359787007499 NAD binding site [chemical binding]; other site 359787007500 catalytic residues [active] 359787007501 maltose O-acetyltransferase; Provisional; Region: PRK10092 359787007502 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 359787007503 active site 359787007504 substrate binding site [chemical binding]; other site 359787007505 trimer interface [polypeptide binding]; other site 359787007506 CoA binding site [chemical binding]; other site 359787007507 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 359787007508 metal-binding site [ion binding] 359787007509 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 359787007510 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 359787007511 metal-binding site [ion binding] 359787007512 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 359787007513 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 359787007514 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 359787007515 metal-binding site [ion binding] 359787007516 D-lactate dehydrogenase; Validated; Region: PRK08605 359787007517 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787007518 transaminase; Reviewed; Region: PRK08068 359787007519 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 359787007520 pyridoxal 5'-phosphate binding site [chemical binding]; other site 359787007521 homodimer interface [polypeptide binding]; other site 359787007522 catalytic residue [active] 359787007523 phytoene desaturase; Region: crtI_fam; TIGR02734 359787007524 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787007525 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 359787007526 active site lid residues [active] 359787007527 substrate binding pocket [chemical binding]; other site 359787007528 catalytic residues [active] 359787007529 substrate-Mg2+ binding site; other site 359787007530 aspartate-rich region 1; other site 359787007531 aspartate-rich region 2; other site 359787007532 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 359787007533 active site 359787007534 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 359787007535 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787007536 NlpC/P60 family; Region: NLPC_P60; cl11438 359787007537 OpgC protein; Region: OpgC_C; cl00792 359787007538 Acyltransferase family; Region: Acyl_transf_3; pfam01757 359787007539 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 359787007540 catalytic triad [active] 359787007541 catalytic triad [active] 359787007542 oxyanion hole [active] 359787007543 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 359787007544 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 359787007545 Phosphotransferase system, EIIC; Region: PTS_EIIC_2; pfam13303 359787007546 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 359787007547 Helix-turn-helix domains; Region: HTH; cl00088 359787007548 Bacterial protein of unknown function (DUF896); Region: DUF896; cl01722 359787007549 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 359787007550 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 359787007551 NmrA (a transcriptional regulator) and HSCARG (an NADPH sensor) like proteins, atypical (a) SDRs; Region: NmrA_like_SDR_a; cd05251 359787007552 NmrA-like family; Region: NmrA; pfam05368 359787007553 NADP binding site [chemical binding]; other site 359787007554 active site 359787007555 regulatory binding site [polypeptide binding]; other site 359787007556 Uncharacterized protein conserved in bacteria (DUF2316); Region: DUF2316; cl01805 359787007557 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 359787007558 Helix-turn-helix domains; Region: HTH; cl00088 359787007559 acetoacetyl-CoA reductase; Provisional; Region: PRK12824 359787007560 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787007561 NAD(P) binding site [chemical binding]; other site 359787007562 active site 359787007563 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 359787007564 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 359787007565 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 359787007566 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 359787007567 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 359787007568 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 359787007569 Nucleoside recognition; Region: Gate; cl00486 359787007570 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 359787007571 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 359787007572 Domain of unknown function (DUF4176); Region: DUF4176; cl01867 359787007573 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 359787007574 Phosphotransferase enzyme family; Region: APH; pfam01636 359787007575 active site 359787007576 substrate binding site [chemical binding]; other site 359787007577 ATP binding site [chemical binding]; other site 359787007578 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 359787007579 quinone interaction residues [chemical binding]; other site 359787007580 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 359787007581 active site 359787007582 catalytic residues [active] 359787007583 FMN binding site [chemical binding]; other site 359787007584 substrate binding site [chemical binding]; other site 359787007585 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 359787007586 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 359787007587 dimer interface [polypeptide binding]; other site 359787007588 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 359787007589 Helix-turn-helix domains; Region: HTH; cl00088 359787007590 Predicted acyl esterases [General function prediction only]; Region: COG2936 359787007591 X-Pro dipeptidyl-peptidase C-terminal non-catalytic domain; Region: PepX_C; cl08482 359787007592 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 359787007593 active site 359787007594 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 359787007595 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 359787007596 tetramerization interface [polypeptide binding]; other site 359787007597 active site 359787007598 pantoate--beta-alanine ligase; Region: panC; TIGR00018 359787007599 Pantoate-beta-alanine ligase; Region: PanC; cd00560 359787007600 active site 359787007601 ATP-binding site [chemical binding]; other site 359787007602 pantoate-binding site; other site 359787007603 HXXH motif; other site 359787007604 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 359787007605 oligomerization interface [polypeptide binding]; other site 359787007606 active site 359787007607 metal binding site [ion binding]; metal-binding site 359787007608 2-dehydropantoate 2-reductase; Provisional; Region: PRK12921 359787007609 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787007610 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 359787007611 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; cl01408 359787007612 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 359787007613 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 359787007614 tetramer (dimer of dimers) interface [polypeptide binding]; other site 359787007615 NAD binding site [chemical binding]; other site 359787007616 dimer interface [polypeptide binding]; other site 359787007617 substrate binding site [chemical binding]; other site 359787007618 amino acid transporter; Region: 2A0306; TIGR00909 359787007619 Spore germination protein; Region: Spore_permease; cl15802 359787007620 Spore germination protein; Region: Spore_permease; cl15802 359787007621 4-aminobutyrate aminotransferase; Provisional; Region: PRK08593 359787007622 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 359787007623 inhibitor-cofactor binding pocket; inhibition site 359787007624 pyridoxal 5'-phosphate binding site [chemical binding]; other site 359787007625 catalytic residue [active] 359787007626 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 359787007627 catalytic residue [active] 359787007628 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787007629 Predicted dehydrogenase [General function prediction only]; Region: COG0579 359787007630 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 359787007631 AMP-binding enzyme; Region: AMP-binding; cl15778 359787007632 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 359787007633 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 359787007634 Protein of unknown function (DUF1250); Region: DUF1250; cl11485 359787007635 choline dehydrogenase; Validated; Region: PRK02106 359787007636 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 359787007637 Bacillus subtilis NAD+-dependent betaine aldehyde dehydrogenase-like; Region: ALDH_BADH-GbsA; cd07119 359787007638 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 359787007639 tetramerization interface [polypeptide binding]; other site 359787007640 NAD(P) binding site [chemical binding]; other site 359787007641 catalytic residues [active] 359787007642 Predicted transcriptional regulators [Transcription]; Region: COG1510 359787007643 BCCT family transporter; Region: BCCT; cl00569 359787007644 4Fe-4S single cluster domain; Region: Fer4_12; pfam13353 359787007645 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 359787007646 FeS/SAM binding site; other site 359787007647 anaerobic ribonucleoside-triphosphate reductase; Region: NrdD; TIGR02487 359787007648 Class III ribonucleotide reductase; Region: RNR_III; cd01675 359787007649 effector binding site; other site 359787007650 active site 359787007651 Zn binding site [ion binding]; other site 359787007652 glycine loop; other site 359787007653 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 359787007654 Citrate transporter; Region: CitMHS; pfam03600 359787007655 precorrin-2 dehydrogenase; Reviewed; Region: PRK06718 359787007656 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787007657 sulfite reductase [NADPH] flavoprotein, alpha-component; Region: cysJ; TIGR01931 359787007658 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 359787007659 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 359787007660 FAD binding pocket [chemical binding]; other site 359787007661 FAD binding motif [chemical binding]; other site 359787007662 catalytic residues [active] 359787007663 NAD binding pocket [chemical binding]; other site 359787007664 phosphate binding motif [ion binding]; other site 359787007665 beta-alpha-beta structure motif; other site 359787007666 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 359787007667 catalytic residues [active] 359787007668 dimer interface [polypeptide binding]; other site 359787007669 FtsX-like permease family; Region: FtsX; cl15850 359787007670 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 359787007671 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 359787007672 Walker A/P-loop; other site 359787007673 ATP binding site [chemical binding]; other site 359787007674 Q-loop/lid; other site 359787007675 ABC transporter signature motif; other site 359787007676 Walker B; other site 359787007677 D-loop; other site 359787007678 H-loop/switch region; other site 359787007679 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 359787007680 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 359787007681 ATP binding site [chemical binding]; other site 359787007682 Mg2+ binding site [ion binding]; other site 359787007683 G-X-G motif; other site 359787007684 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 359787007685 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 359787007686 active site 359787007687 phosphorylation site [posttranslational modification] 359787007688 intermolecular recognition site; other site 359787007689 dimerization interface [polypeptide binding]; other site 359787007690 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 359787007691 DNA binding site [nucleotide binding] 359787007692 Alkaline phosphatase [Inorganic ion transport and metabolism]; Region: PhoA; COG1785 359787007693 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 359787007694 dimer interface [polypeptide binding]; other site 359787007695 active site 359787007696 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 359787007697 Protein of unknown function (DUF2648); Region: DUF2648; pfam10855 359787007698 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 359787007699 Helix-turn-helix domains; Region: HTH; cl00088 359787007700 Predicted esterase [General function prediction only]; Region: COG0627 359787007701 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 359787007702 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 359787007703 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 359787007704 C-terminus of bacterial fibrinogen-binding adhesin; Region: SdrG_C_C; pfam10425 359787007705 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 359787007706 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 359787007707 Helix-turn-helix domains; Region: HTH; cl00088 359787007708 carbamate kinase; Reviewed; Region: PRK12686 359787007709 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 359787007710 putative substrate binding site [chemical binding]; other site 359787007711 nucleotide binding site [chemical binding]; other site 359787007712 nucleotide binding site [chemical binding]; other site 359787007713 homodimer interface [polypeptide binding]; other site 359787007714 arginine/ornithine antiporter; Region: arg_ornith_anti; TIGR03810 359787007715 ornithine carbamoyltransferase; Validated; Region: PRK02102 359787007716 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 359787007717 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787007718 Amidinotransferase; Region: Amidinotransf; cl12043 359787007719 Arginine repressor [Transcription]; Region: ArgR; COG1438 359787007720 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 359787007721 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 359787007722 Zinc metalloprotease (elastase) [Amino acid transport and metabolism]; Region: LasB; COG3227 359787007723 Fungalysin/Thermolysin Propeptide Motif; Region: FTP; pfam07504 359787007724 Peptidase propeptide and YPEB domain; Region: PepSY; cl15815 359787007725 Peptidase M4 family includes thermolysin, protealysin, aureolysin and neutral protease; Region: M4_neutral_protease; cd09597 359787007726 active site 359787007727 Zn binding site [ion binding]; other site 359787007728 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 359787007729 Helix-turn-helix domains; Region: HTH; cl00088 359787007730 PRD domain; Region: PRD; cl15445 359787007731 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 359787007732 P-loop; other site 359787007733 active site 359787007734 phosphorylation site [posttranslational modification] 359787007735 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 359787007736 active site 359787007737 phosphorylation site [posttranslational modification] 359787007738 putative PTS system transporter subunits IIBC; Provisional; Region: PRK11404 359787007739 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 359787007740 P-loop; other site 359787007741 active site 359787007742 phosphorylation site [posttranslational modification] 359787007743 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 359787007744 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 359787007745 active site 359787007746 phosphorylation site [posttranslational modification] 359787007747 Phosphomannose isomerase [Carbohydrate transport and metabolism]; Region: ManA; COG1482 359787007748 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 359787007749 Predicted membrane protein [Function unknown]; Region: COG1511 359787007750 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 359787007751 ABC-2 type transporter; Region: ABC2_membrane; cl11417 359787007752 N-acetylmuramoyl-L-alanine amidase; Validated; Region: PRK08581 359787007753 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 359787007754 NlpC/P60 family; Region: NLPC_P60; cl11438 359787007755 Isochorismatase family; Region: Isochorismatase; pfam00857 359787007756 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 359787007757 catalytic triad [active] 359787007758 conserved cis-peptide bond; other site 359787007759 accessory Sec system glycosyltransferase GtfB; Region: TIGR02919 359787007760 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 359787007761 accessory Sec system glycosylation protein GtfA; Region: TIGR02918 359787007762 Domain of unknown function (DUF1975); Region: DUF1975; pfam09318 359787007763 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 359787007764 accessory Sec system translocase SecA2; Region: secA2; TIGR03714 359787007765 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 359787007766 ATP binding site [chemical binding]; other site 359787007767 putative Mg++ binding site [ion binding]; other site 359787007768 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 359787007769 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 359787007770 nucleotide binding region [chemical binding]; other site 359787007771 ATP-binding site [chemical binding]; other site 359787007772 accessory Sec system protein Asp3; Region: acc_sec_asp3; TIGR03711 359787007773 accessory Sec system protein Asp2; Region: acc_sec_asp2; TIGR03712 359787007774 accessory Sec system protein Asp1; Region: acc_sec_asp1; TIGR03713 359787007775 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 359787007776 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK12417 359787007777 SecY translocase; Region: SecY; pfam00344 359787007778 KxYKxGKxW signal peptide; Region: KxYKxGKxW; TIGR03715 359787007779 legume lectins; Region: lectin_L-type; cd01951 359787007780 homotetramer interaction site [polypeptide binding]; other site 359787007781 carbohydrate binding site [chemical binding]; other site 359787007782 metal binding site [ion binding]; metal-binding site 359787007783 Cadherin repeat-like domain; Region: CA_like; cl15786 359787007784 Flavin Reductases; Region: FlaRed; cl00801 359787007785 Flavin Reductases; Region: FlaRed; cl00801 359787007786 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 359787007787 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 359787007788 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 359787007789 Coenzyme A binding pocket [chemical binding]; other site 359787007790 Capsular polysaccharide biosynthesis protein [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: CapC; COG4464 359787007791 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 359787007792 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 359787007793 Capsular polysaccharide biosynthesis protein [Cell envelope biogenesis, outer membrane]; Region: COG3944 359787007794 Chain length determinant protein; Region: Wzz; cl15801 359787007795 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 359787007796 Helix-turn-helix domains; Region: HTH; cl00088 359787007797 poly-beta-1,6 N-acetyl-D-glucosamine synthase; Region: PgaC_IcaA; TIGR03937 359787007798 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 359787007799 DXD motif; other site 359787007800 intracellular adhesion protein D; Region: PIA_icaD; TIGR03932 359787007801 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 359787007802 OpgC protein; Region: OpgC_C; cl00792 359787007803 YSIRK type signal peptide; Region: YSIRK_signal; cl04650 359787007804 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 359787007805 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 359787007806 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 359787007807 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 359787007808 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 359787007809 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 359787007810 substrate binding site [chemical binding]; other site 359787007811 glutamase interaction surface [polypeptide binding]; other site 359787007812 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 359787007813 phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase; Region: TIGR00007 359787007814 catalytic residues [active] 359787007815 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13142 359787007816 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 359787007817 putative active site [active] 359787007818 oxyanion strand; other site 359787007819 catalytic triad [active] 359787007820 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 359787007821 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 359787007822 putative active site pocket [active] 359787007823 4-fold oligomerization interface [polypeptide binding]; other site 359787007824 metal binding residues [ion binding]; metal-binding site 359787007825 3-fold/trimer interface [polypeptide binding]; other site 359787007826 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 359787007827 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 359787007828 pyridoxal 5'-phosphate binding site [chemical binding]; other site 359787007829 homodimer interface [polypeptide binding]; other site 359787007830 catalytic residue [active] 359787007831 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 359787007832 histidinol dehydrogenase; Region: hisD; TIGR00069 359787007833 NAD binding site [chemical binding]; other site 359787007834 dimerization interface [polypeptide binding]; other site 359787007835 product binding site; other site 359787007836 substrate binding site [chemical binding]; other site 359787007837 zinc binding site [ion binding]; other site 359787007838 catalytic residues [active] 359787007839 ATP phosphoribosyltransferase; Region: HisG; cl15266 359787007840 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 359787007841 Histidyl-tRNA synthetase; Region: tRNA-synt_His; pfam13393 359787007842 Catalytic NodB homology domain of the carbohydrate esterase 4 superfamily; Region: CE4_SF; cl15692 359787007843 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 359787007844 putative active site [active] 359787007845 putative metal binding site [ion binding]; other site 359787007846 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 359787007847 Cobalt transport protein; Region: CbiQ; cl00463 359787007848 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 359787007849 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 359787007850 Walker A/P-loop; other site 359787007851 ATP binding site [chemical binding]; other site 359787007852 Q-loop/lid; other site 359787007853 ABC transporter signature motif; other site 359787007854 Walker B; other site 359787007855 D-loop; other site 359787007856 H-loop/switch region; other site 359787007857 ATP-binding cassette cobalt transporter; Region: DUF3744; pfam12558 359787007858 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 359787007859 Walker A/P-loop; other site 359787007860 ATP binding site [chemical binding]; other site 359787007861 Q-loop/lid; other site 359787007862 ABC transporter signature motif; other site 359787007863 Walker B; other site 359787007864 D-loop; other site 359787007865 H-loop/switch region; other site 359787007866 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 359787007867 Uncharacterized conserved protein [Function unknown]; Region: COG1912 359787007868 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 359787007869 YceI-like domain; Region: YceI; cl01001 359787007870 Gluconolactonase [Carbohydrate transport and metabolism]; Region: COG3386 359787007871 Strictosidine synthase; Region: Str_synth; pfam03088 359787007872 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 359787007873 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 359787007874 active site residue [active] 359787007875 Protein of unknown function (DUF3650); Region: DUF3650; pfam12368 359787007876 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 359787007877 putative substrate binding pocket [chemical binding]; other site 359787007878 AC domain interface; other site 359787007879 catalytic triad [active] 359787007880 AB domain interface; other site 359787007881 interchain disulfide; other site 359787007882 Helix-turn-helix domains; Region: HTH; cl00088 359787007883 DinB superfamily; Region: DinB_2; pfam12867 359787007884 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 359787007885 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 359787007886 transmembrane helices; other site 359787007887 Predicted permeases [General function prediction only]; Region: RarD; COG2962 359787007888 EamA-like transporter family; Region: EamA; cl01037 359787007889 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 359787007890 High-affinity nickel-transport protein; Region: NicO; cl00964 359787007891 N-acetyltransferase; Region: Acetyltransf_2; cl00949 359787007892 Short repeat of unknown function (DUF308); Region: DUF308; cl15828 359787007893 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 359787007894 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 359787007895 Walker A/P-loop; other site 359787007896 ATP binding site [chemical binding]; other site 359787007897 Q-loop/lid; other site 359787007898 ABC transporter signature motif; other site 359787007899 Walker B; other site 359787007900 D-loop; other site 359787007901 H-loop/switch region; other site 359787007902 FtsX-like permease family; Region: FtsX; cl15850 359787007903 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 359787007904 DNA-binding site [nucleotide binding]; DNA binding site 359787007905 RNA-binding motif; other site 359787007906 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 359787007907 non-specific DNA binding site [nucleotide binding]; other site 359787007908 salt bridge; other site 359787007909 sequence-specific DNA binding site [nucleotide binding]; other site 359787007910 Protein of unknown function (DUF3147); Region: DUF3147; pfam11345 359787007911 Protein of unknown function (DUF3147); Region: DUF3147; pfam11345 359787007912 ParB-like nuclease domain; Region: ParBc; cl02129 359787007913 ParB-like partition proteins; Region: parB_part; TIGR00180 359787007914 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 359787007915 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 359787007916 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 359787007917 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 359787007918 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 359787007919 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 359787007920 trmE is a tRNA modification GTPase; Region: trmE; cd04164 359787007921 G1 box; other site 359787007922 GTP/Mg2+ binding site [chemical binding]; other site 359787007923 Switch I region; other site 359787007924 G2 box; other site 359787007925 Switch II region; other site 359787007926 G3 box; other site 359787007927 G4 box; other site 359787007928 G5 box; other site 359787007929 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 359787007930 Ribonuclease P; Region: Ribonuclease_P; cl00457 359787007931 Ribosomal protein L34; Region: Ribosomal_L34; cl00370