-- dump date 20111121_013239 -- class Genbank::misc_feature -- table misc_feature_note -- id note 465515000001 chromosomal replication initiation protein; Provisional; Region: dnaA; PRK14086 465515000002 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...; Region: AAA; cd00009 465515000003 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 465515000004 Walker A motif; other site 465515000005 ATP binding site [chemical binding]; other site 465515000006 Walker B motif; other site 465515000007 arginine finger; other site 465515000008 replication factor C small subunit 2; Reviewed; Region: PRK12402 465515000009 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 465515000010 DnaA box-binding interface [nucleotide binding]; other site 465515000011 DNA polymerase III subunit beta; Validated; Region: PRK07761 465515000012 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...; Region: beta_clamp; cd00140 465515000013 putative DNA binding surface [nucleotide binding]; other site 465515000014 dimer interface [polypeptide binding]; other site 465515000015 beta-clamp/clamp loader binding surface; other site 465515000016 beta-clamp/translesion DNA polymerase binding surface; other site 465515000017 recombination protein F; Reviewed; Region: recF; PRK00064 465515000018 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 465515000019 Walker A/P-loop; other site 465515000020 ATP binding site [chemical binding]; other site 465515000021 Q-loop/lid; other site 465515000022 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 465515000023 ABC transporter signature motif; other site 465515000024 Walker B; other site 465515000025 D-loop; other site 465515000026 H-loop/switch region; other site 465515000027 Protein of unknown function (DUF721); Region: DUF721; cl02324 465515000028 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 465515000029 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 465515000030 anchoring element; other site 465515000031 dimer interface [polypeptide binding]; other site 465515000032 ATP binding site [chemical binding]; other site 465515000033 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...; Region: TOPRIM_TopoIIA_GyrB; cd03366 465515000034 active site 465515000035 putative metal-binding site [ion binding]; other site 465515000036 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 465515000037 DNA gyrase subunit A; Validated; Region: PRK05560 465515000038 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...; Region: TOP4c; cd00187 465515000039 CAP-like domain; other site 465515000040 Active site [active] 465515000041 primary dimer interface [polypeptide binding]; other site 465515000042 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 465515000043 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 465515000044 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 465515000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 465515000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 465515000047 Transmembrane domain of unknown function (DUF3566); Region: DUF3566; pfam12089 465515000048 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 465515000049 dimer interface [polypeptide binding]; other site 465515000050 ssDNA binding site [nucleotide binding]; other site 465515000051 tetramer (dimer of dimers) interface [polypeptide binding]; other site 465515000052 conjugal transfer coupling protein TraG; Provisional; Region: PRK13880 465515000053 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 465515000054 Walker A motif; other site 465515000055 ATP binding site [chemical binding]; other site 465515000056 Walker B motif; other site 465515000057 AAA-like domain; Region: AAA_10; pfam12846 465515000058 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 465515000059 S-adenosylmethionine binding site [chemical binding]; other site 465515000060 Peptidase family M23; Region: Peptidase_M23; pfam01551 465515000061 ParB-like nuclease domain; Region: ParBc; cl02129 465515000062 Protein of unknown function (DUF2637); Region: DUF2637; pfam10935 465515000063 Prim_Pol: Primase-polymerase (primpol) domain of the type found in bifunctional replicases from archaeal plasmids, including ORF904 protein of the crenarchaeal plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol). These primpol domains belong to the...; Region: Prim_Pol; cd04859 465515000064 polymerase nucleotide-binding site; other site 465515000065 DNA-binding residues [nucleotide binding]; DNA binding site 465515000066 nucleotide binding site [chemical binding]; other site 465515000067 primase nucleotide-binding site [nucleotide binding]; other site 465515000068 Primase C terminal 1 (PriCT-1); Region: PriCT_1; cl07362 465515000069 Transposase, Mutator family; Region: Transposase_mut; pfam00872 465515000070 MULE transposase domain; Region: MULE; pfam10551 465515000071 Domain of unknown function (DUF955); Region: DUF955; cl01076 465515000072 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 465515000073 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 465515000074 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 465515000075 hypothetical protein; Provisional; Region: PRK06185 465515000076 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515000077 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 465515000078 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 465515000079 TrwC relaxase; Region: TrwC; cl08490 465515000080 Ti-type conjugative transfer relaxase TraA; Region: TraA_Ti; TIGR02768 465515000081 Transposase, Mutator family; Region: Transposase_mut; pfam00872 465515000082 MULE transposase domain; Region: MULE; pfam10551 465515000083 Transposase, Mutator family; Region: Transposase_mut; pfam00872 465515000084 MULE transposase domain; Region: MULE; pfam10551 465515000085 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 465515000086 Transposase; Region: DDE_Tnp_ISL3; pfam01610 465515000087 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 465515000088 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; cl01116 465515000089 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 465515000090 Integrase core domain; Region: rve; cl01316 465515000091 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 465515000092 Transposase; Region: DDE_Tnp_ISL3; pfam01610 465515000093 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 465515000094 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 465515000095 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 465515000096 dimer interface [polypeptide binding]; other site 465515000097 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 465515000098 chaperone protein DnaJ; Provisional; Region: PRK14299 465515000099 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...; Region: DnaJ; cd06257 465515000100 HSP70 interaction site [polypeptide binding]; other site 465515000101 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 465515000102 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 465515000103 DNA binding residues [nucleotide binding] 465515000104 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 465515000105 Clp amino terminal domain; Region: Clp_N; pfam02861 465515000106 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...; Region: AAA; cd00009 465515000107 Walker A motif; other site 465515000108 ATP binding site [chemical binding]; other site 465515000109 Walker B motif; other site 465515000110 arginine finger; other site 465515000111 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...; Region: AAA; cd00009 465515000112 Walker A motif; other site 465515000113 ATP binding site [chemical binding]; other site 465515000114 Walker B motif; other site 465515000115 arginine finger; other site 465515000116 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 465515000117 thioredoxin 2; Provisional; Region: PRK10996 465515000118 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 465515000119 catalytic residues [active] 465515000120 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 465515000121 ligand binding site [chemical binding]; other site 465515000122 flexible hinge region; other site 465515000123 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 465515000124 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515000125 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 465515000126 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 465515000127 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 465515000128 active site 465515000129 Rhomboid family; Region: Rhomboid; cl11446 465515000130 Uncharacterised protein family (UPF0233); Region: UPF0233; cl11506 465515000131 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 465515000132 Glutamine amidotransferase class-I; Region: GATase; pfam00117 465515000133 glutamine binding [chemical binding]; other site 465515000134 catalytic triad [active] 465515000135 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 465515000136 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 465515000137 active site 465515000138 ATP binding site [chemical binding]; other site 465515000139 substrate binding site [chemical binding]; other site 465515000140 activation loop (A-loop); other site 465515000141 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 465515000142 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 465515000143 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 465515000144 Catalytic domain of Protein Kinases; Region: PKc; cd00180 465515000145 active site 465515000146 ATP binding site [chemical binding]; other site 465515000147 substrate binding site [chemical binding]; other site 465515000148 activation loop (A-loop); other site 465515000149 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 465515000150 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 465515000151 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 465515000152 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 465515000153 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 465515000154 Active site [active] 465515000155 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 465515000156 phosphopeptide binding site; other site 465515000157 Protein of unknown function (DUF2662); Region: DUF3662; pfam12401 465515000158 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 465515000159 phosphopeptide binding site; other site 465515000160 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 465515000161 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 465515000162 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 465515000163 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 465515000164 Tripartite tricarboxylate transporter TctA family; Region: TctA; cl00772 465515000165 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 465515000166 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 465515000167 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 465515000168 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 465515000169 NAD(P) binding site [chemical binding]; other site 465515000170 YceI-like domain; Region: YceI; cl01001 465515000171 Dienelactone hydrolase family; Region: DLH; pfam01738 465515000172 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 465515000173 hypothetical protein; Provisional; Region: PRK06062 465515000174 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 465515000175 inhibitor-cofactor binding pocket; inhibition site 465515000176 pyridoxal 5'-phosphate binding site [chemical binding]; other site 465515000177 catalytic residue [active] 465515000178 Sulfate transporter family; Region: Sulfate_transp; cl00967 465515000179 pfkB family carbohydrate kinase; Region: PfkB; pfam00294 465515000180 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 465515000181 putative substrate binding site [chemical binding]; other site 465515000182 putative ATP binding site [chemical binding]; other site 465515000183 malate dehydrogenase; Provisional; Region: PRK05442 465515000184 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl11406 465515000185 NAD(P) binding site [chemical binding]; other site 465515000186 LDH/MDH dimer interface [polypeptide binding]; other site 465515000187 substrate binding site [chemical binding]; other site 465515000188 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 465515000189 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 465515000190 active site 465515000191 motif I; other site 465515000192 motif II; other site 465515000193 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; cl11391 465515000194 LabA_like proteins. A well conserved group of bacterial proteins with no defined function. LabA, a member from Synechococcus elongatus PCC 7942, has been shown to play a role in cyanobacterial circadian timing. It is required for negative feedback...; Region: LabA_like; cd06167 465515000195 putative metal binding site [ion binding]; other site 465515000196 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 465515000197 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 465515000198 Amino acid permease; Region: AA_permease; pfam00324 465515000199 Low-specificity threonine aldolase (TA). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). TA catalyzes the conversion of L-threonine or L-allo-threonine to glycine and acetaldehyde in a...; Region: TA_like; cd06502 465515000200 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 465515000201 tetramer interface [polypeptide binding]; other site 465515000202 pyridoxal 5'-phosphate binding site [chemical binding]; other site 465515000203 catalytic residue [active] 465515000204 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515000205 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 465515000206 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 465515000207 Glycerophosphodiester phosphodiesterase domain of Streptomyces coelicolor cytoplasmic phosphodiesterases UgpQ2 and similar proteins; Region: GDPD_cytoplasmic_ScUgpQ2_like; cd08561 465515000208 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 465515000209 putative active site [active] 465515000210 catalytic site [active] 465515000211 putative metal binding site [ion binding]; other site 465515000212 ALDH subfamily: Coniferyl aldehyde dehydrogenase, ALDH families 3, 13, and 14, and other related proteins; Region: ALDH_F3-13-14_CALDH-like; cd07087 465515000213 NAD(P) binding site [chemical binding]; other site 465515000214 catalytic residues [active] 465515000215 phosphoglucomutase; Validated; Region: PRK07564 465515000216 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 465515000217 active site 465515000218 substrate binding site [chemical binding]; other site 465515000219 metal binding site [ion binding]; metal-binding site 465515000220 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 465515000221 metal binding site 2 [ion binding]; metal-binding site 465515000222 putative DNA binding helix; other site 465515000223 metal binding site 1 [ion binding]; metal-binding site 465515000224 dimer interface [polypeptide binding]; other site 465515000225 structural Zn2+ binding site [ion binding]; other site 465515000226 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 465515000227 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 465515000228 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 465515000229 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 465515000230 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 465515000231 active site residue [active] 465515000232 prephenate dehydratase; Provisional; Region: PRK11898 465515000233 Prephenate dehydratase; Region: PDT; pfam00800 465515000234 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 465515000235 putative L-Phe binding site [chemical binding]; other site 465515000236 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 465515000237 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 465515000238 seryl-tRNA synthetase; Provisional; Region: PRK05431 465515000239 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 465515000240 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 465515000241 dimer interface [polypeptide binding]; other site 465515000242 active site 465515000243 motif 1; other site 465515000244 motif 2; other site 465515000245 motif 3; other site 465515000246 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 465515000247 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 465515000248 active site 465515000249 motif I; other site 465515000250 motif II; other site 465515000251 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 465515000252 Inorganic pyrophosphatase. These enzymes hydrolyze inorganic pyrophosphate (PPi) to two molecules of orthophosphates (Pi). The reaction requires bivalent cations. The enzymes in general exist as homooligomers; Region: pyrophosphatase; cd00412 465515000253 dimer interface [polypeptide binding]; other site 465515000254 substrate binding site [chemical binding]; other site 465515000255 metal binding sites [ion binding]; metal-binding site 465515000256 PBP4 family; Region: PBP4; TIGR00666 465515000257 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl15297 465515000258 Uncharacterised conserved protein (DUF2342); Region: DUF2342; cl02183 465515000259 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 465515000260 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 465515000261 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 465515000262 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...; Region: AAA; cd00009 465515000263 Walker A motif; other site 465515000264 ATP binding site [chemical binding]; other site 465515000265 Walker B motif; other site 465515000266 arginine finger; other site 465515000267 Peptidase family M41; Region: Peptidase_M41; pfam01434 465515000268 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 465515000269 homodecamer interface [polypeptide binding]; other site 465515000270 GTP cyclohydrolase I; Provisional; Region: PLN03044 465515000271 active site 465515000272 putative catalytic site residues [active] 465515000273 zinc binding site [ion binding]; other site 465515000274 GTP-CH-I/GFRP interaction surface; other site 465515000275 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 465515000276 Pterin binding enzyme; Region: Pterin_bind; pfam00809 465515000277 substrate binding pocket [chemical binding]; other site 465515000278 inhibitor binding site; inhibition site 465515000279 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...; Region: DHNA_DHNTPE; cd00534 465515000280 homooctamer interface [polypeptide binding]; other site 465515000281 active site 465515000282 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 465515000283 catalytic center binding site [active] 465515000284 ATP binding site [chemical binding]; other site 465515000285 Protein of unknown function (DUF3180); Region: DUF3180; pfam11377 465515000286 Bacterial membrane flanked domain; Region: DUF304; cl01348 465515000287 Predicted membrane protein [Function unknown]; Region: COG3428 465515000288 Bacterial membrane flanked domain; Region: DUF304; cl01348 465515000289 Bacterial membrane flanked domain; Region: DUF304; cl01348 465515000290 Bacterial membrane flanked domain; Region: DUF304; cl01348 465515000291 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515000292 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 465515000293 Low molecular weight phosphatase family; Region: LMWPc; cd00115 465515000294 Active site [active] 465515000295 Domain of unknown function (DUF3806); Region: DUF3806; pfam12713 465515000296 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 465515000297 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 465515000298 Transcriptional regulator [Transcription]; Region: LysR; COG0583 465515000299 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 465515000300 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 465515000301 dimerization interface [polypeptide binding]; other site 465515000302 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 465515000303 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515000304 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 465515000305 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 465515000306 tetrameric interface [polypeptide binding]; other site 465515000307 NAD binding site [chemical binding]; other site 465515000308 catalytic residues [active] 465515000309 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 465515000310 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 465515000311 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 465515000312 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 465515000313 active site 465515000314 catalytic site [active] 465515000315 Protein of unknown function (DUF3618); Region: DUF3618; pfam12277 465515000316 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 465515000317 active site 465515000318 nucleotide binding site [chemical binding]; other site 465515000319 HIGH motif; other site 465515000320 KMSKS motif; other site 465515000321 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 465515000322 active site 465515000323 DNA binding site [nucleotide binding] 465515000324 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_7; cd07825 465515000325 putative hydrophobic ligand binding site [chemical binding]; other site 465515000326 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 465515000327 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 465515000328 active site 465515000329 Zn binding site [ion binding]; other site 465515000330 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 465515000331 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 465515000332 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 465515000333 putative substrate translocation pore; other site 465515000334 glyoxylate reductase; Reviewed; Region: PRK13243 465515000335 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515000336 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 465515000337 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-...; Region: LysRS_N; cd04322 465515000338 dimer interface [polypeptide binding]; other site 465515000339 putative anticodon binding site; other site 465515000340 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 465515000341 motif 1; other site 465515000342 dimer interface [polypeptide binding]; other site 465515000343 active site 465515000344 motif 2; other site 465515000345 motif 3; other site 465515000346 Lsr2; Region: Lsr2; pfam11774 465515000347 Clp protease ATP binding subunit; Region: clpC; CHL00095 465515000348 Clp amino terminal domain; Region: Clp_N; pfam02861 465515000349 Clp amino terminal domain; Region: Clp_N; pfam02861 465515000350 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...; Region: AAA; cd00009 465515000351 Walker A motif; other site 465515000352 ATP binding site [chemical binding]; other site 465515000353 Walker B motif; other site 465515000354 arginine finger; other site 465515000355 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...; Region: AAA; cd00009 465515000356 Walker A motif; other site 465515000357 ATP binding site [chemical binding]; other site 465515000358 Walker B motif; other site 465515000359 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 465515000360 Citrate lyase synthetase [Energy production and conversion]; Region: CitC; COG3053 465515000361 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 465515000362 Coenzyme A binding pocket [chemical binding]; other site 465515000363 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 465515000364 endonuclease III; Region: ENDO3c; smart00478 465515000365 minor groove reading motif; other site 465515000366 helix-hairpin-helix signature motif; other site 465515000367 substrate binding pocket [chemical binding]; other site 465515000368 active site 465515000369 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 465515000370 DNA repair protein RadA; Provisional; Region: PRK11823 465515000371 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 465515000372 Walker A motif; other site 465515000373 ATP binding site [chemical binding]; other site 465515000374 Walker B motif; other site 465515000375 Predicted membrane protein [Function unknown]; Region: COG4129 465515000376 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 465515000377 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...; Region: TM_PBP2; cd06261 465515000378 dimer interface [polypeptide binding]; other site 465515000379 conserved gate region; other site 465515000380 putative PBP binding loops; other site 465515000381 ABC-ATPase subunit interface; other site 465515000382 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 465515000383 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...; Region: TM_PBP2; cd06261 465515000384 dimer interface [polypeptide binding]; other site 465515000385 conserved gate region; other site 465515000386 putative PBP binding loops; other site 465515000387 ABC-ATPase subunit interface; other site 465515000388 phosphate transporter ATP-binding protein; Provisional; Region: PRK14241 465515000389 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 465515000390 Walker A/P-loop; other site 465515000391 ATP binding site [chemical binding]; other site 465515000392 Q-loop/lid; other site 465515000393 ABC transporter signature motif; other site 465515000394 Walker B; other site 465515000395 D-loop; other site 465515000396 H-loop/switch region; other site 465515000397 Phosphate transporter family; Region: PHO4; cl00396 465515000398 Predicted esterase [General function prediction only]; Region: COG0400 465515000399 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 465515000400 Protein of unknown function (DUF445); Region: DUF445; pfam04286 465515000401 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 465515000402 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 465515000403 active site 465515000404 catalytic site [active] 465515000405 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 465515000406 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 465515000407 peptide binding site [polypeptide binding]; other site 465515000408 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 465515000409 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...; Region: TM_PBP2; cd06261 465515000410 putative PBP binding loops; other site 465515000411 dimer interface [polypeptide binding]; other site 465515000412 ABC-ATPase subunit interface; other site 465515000413 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...; Region: TM_PBP2; cd06261 465515000414 dimer interface [polypeptide binding]; other site 465515000415 conserved gate region; other site 465515000416 putative PBP binding loops; other site 465515000417 ABC-ATPase subunit interface; other site 465515000418 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 465515000419 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 465515000420 Walker A/P-loop; other site 465515000421 ATP binding site [chemical binding]; other site 465515000422 Q-loop/lid; other site 465515000423 ABC transporter signature motif; other site 465515000424 Walker B; other site 465515000425 D-loop; other site 465515000426 H-loop/switch region; other site 465515000427 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 465515000428 Walker A/P-loop; other site 465515000429 ATP binding site [chemical binding]; other site 465515000430 Q-loop/lid; other site 465515000431 ABC transporter signature motif; other site 465515000432 Walker B; other site 465515000433 D-loop; other site 465515000434 H-loop/switch region; other site 465515000435 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 465515000436 Acetokinase family; Region: Acetate_kinase; cl01029 465515000437 phosphate acetyltransferase; Reviewed; Region: PRK05632 465515000438 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 465515000439 DRTGG domain; Region: DRTGG; cl12147 465515000440 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 465515000441 Natural resistance-associated macrophage protein; Region: Nramp; cl00836 465515000442 Domain of unknown function DUF77; Region: DUF77; cl00307 465515000443 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 465515000444 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 465515000445 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 465515000446 Ligand Binding Site [chemical binding]; other site 465515000447 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 465515000448 Possibl zinc metallo-peptidase; Region: DUF1025; cl01577 465515000449 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; cl00220 465515000450 catalytic triad [active] 465515000451 conserved cis-peptide bond; other site 465515000452 BCCT family transporter; Region: BCCT; cl00569 465515000453 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 465515000454 alpha,alpha-phosphotrehalase; Region: trehalose_treC; TIGR02403 465515000455 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 465515000456 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 beta-...; Region: Arsenite_oxidase; cd02135 465515000457 putative FMN binding site [chemical binding]; other site 465515000458 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 465515000459 putative phosphate binding site [ion binding]; other site 465515000460 putative catalytic site [active] 465515000461 active site 465515000462 metal binding site A [ion binding]; metal-binding site 465515000463 DNA binding site [nucleotide binding] 465515000464 putative AP binding site [nucleotide binding]; other site 465515000465 putative metal binding site B [ion binding]; other site 465515000466 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 465515000467 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...; Region: NAD_synthase; cd00553 465515000468 homodimer interface [polypeptide binding]; other site 465515000469 NAD binding pocket [chemical binding]; other site 465515000470 ATP binding pocket [chemical binding]; other site 465515000471 Mg binding site [ion binding]; other site 465515000472 active-site loop [active] 465515000473 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 465515000474 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 465515000475 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 465515000476 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 465515000477 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 465515000478 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 465515000479 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 465515000480 Secretory lipase; Region: LIP; pfam03583 465515000481 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 465515000482 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 465515000483 active site 465515000484 intersubunit interface [polypeptide binding]; other site 465515000485 zinc binding site [ion binding]; other site 465515000486 Na+ binding site [ion binding]; other site 465515000487 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 465515000488 non-specific DNA binding site [nucleotide binding]; other site 465515000489 salt bridge; other site 465515000490 sequence-specific DNA binding site [nucleotide binding]; other site 465515000491 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 465515000492 Domain of unknown function (DUF955); Region: DUF955; cl01076 465515000493 isocitrate lyase; Provisional; Region: PRK06498 465515000494 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 465515000495 tetramer interface [polypeptide binding]; other site 465515000496 active site 465515000497 Mg2+/Mn2+ binding site [ion binding]; other site 465515000498 Malate synthase A (MSA), present in some bacteria, plants and fungi. Prokaryotic MSAs tend to be monomeric, whereas eukaryotic enzymes are homomultimers. In general, malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to...; Region: malate_synt_A; cd00727 465515000499 malate synthase A; Region: malate_syn_A; TIGR01344 465515000500 active site 465515000501 Protein of unknown function (DUF3151); Region: DUF3151; pfam11349 465515000502 Thymidine kinase; Region: TK; cl00631 465515000503 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 465515000504 Transposase, Mutator family; Region: Transposase_mut; pfam00872 465515000505 MULE transposase domain; Region: MULE; pfam10551 465515000506 putative acetyltransferase YhhY; Provisional; Region: PRK10140 465515000507 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 465515000508 biotin synthase; Validated; Region: PRK06256 465515000509 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 465515000510 FeS/SAM binding site; other site 465515000511 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 465515000512 adenylosuccinate synthetase; Provisional; Region: PRK01117 465515000513 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 r-...; Region: AdSS; cd03108 465515000514 GDP-binding site [chemical binding]; other site 465515000515 ACT binding site; other site 465515000516 IMP binding site; other site 465515000517 hydroperoxidase II; Provisional; Region: katE; PRK11249 465515000518 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 465515000519 heme binding pocket [chemical binding]; other site 465515000520 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 465515000521 conserved cys residue [active] 465515000522 Predicted amidohydrolase [General function prediction only]; Region: COG0388 465515000523 Uncharacterized subgroup of the nitrilase superfamily (putative class 13 nitrilases); Region: nitrilase_3; cd07581 465515000524 putative active site [active] 465515000525 catalytic triad [active] 465515000526 putative dimer interface [polypeptide binding]; other site 465515000527 Transcriptional regulator [Transcription]; Region: IclR; COG1414 465515000528 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 465515000529 urocanate hydratase; Provisional; Region: PRK05414 465515000530 urocanate hydratase; Region: hutU; TIGR01228 465515000531 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3314 465515000532 Nucleoside recognition; Region: Gate; cl00486 465515000533 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 465515000534 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...; Region: metallo-dependent_hydrolases; cl00281 465515000535 active site 465515000536 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 465515000537 tyrosine 2,3-aminomutase; Region: Tyr_2_3_mutase; TIGR03832 465515000538 active sites [active] 465515000539 tetramer interface [polypeptide binding]; other site 465515000540 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]; Region: COG2405 465515000541 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 465515000542 Domain of unknown function (DUF955); Region: DUF955; cl01076 465515000543 Arginase family; Region: Arginase; cl00306 465515000544 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515000545 OAH/OAS sulfhydrylase; Region: OAH_OAS_sulfhy; TIGR01326 465515000546 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 465515000547 homodimer interface [polypeptide binding]; other site 465515000548 substrate-cofactor binding pocket; other site 465515000549 pyridoxal 5'-phosphate binding site [chemical binding]; other site 465515000550 catalytic residue [active] 465515000551 Escherichia coli YfcE and related proteins, metallophosphatase domain; Region: MPP_YfcE; cd00841 465515000552 active site 465515000553 metal binding site [ion binding]; metal-binding site 465515000554 homotetramer interface [polypeptide binding]; other site 465515000555 Protein of unknown function (DUF1648); Region: DUF1648; cl01712 465515000556 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 465515000557 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 465515000558 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 465515000559 FAD binding pocket [chemical binding]; other site 465515000560 FAD binding motif [chemical binding]; other site 465515000561 phosphate binding motif [ion binding]; other site 465515000562 NAD binding pocket [chemical binding]; other site 465515000563 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 465515000564 M20 Peptidase Aminoacylase 1 family; Region: M20_Acy1; cd03886 465515000565 metal binding site [ion binding]; metal-binding site 465515000566 dimer interface [polypeptide binding]; other site 465515000567 acetyl-CoA synthetase; Provisional; Region: PRK00174 465515000568 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 465515000569 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 465515000570 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 465515000571 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 465515000572 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 465515000573 active site 465515000574 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...; Region: TM_PBP2; cd06261 465515000575 dimer interface [polypeptide binding]; other site 465515000576 conserved gate region; other site 465515000577 putative PBP binding loops; other site 465515000578 ABC-ATPase subunit interface; other site 465515000579 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 465515000580 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 465515000581 active site 465515000582 non-prolyl cis peptide bond; other site 465515000583 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 465515000584 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 465515000585 dimerization interface [polypeptide binding]; other site 465515000586 ATP binding site [chemical binding]; other site 465515000587 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 465515000588 dimerization interface [polypeptide binding]; other site 465515000589 ATP binding site [chemical binding]; other site 465515000590 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 465515000591 putative active site [active] 465515000592 catalytic triad [active] 465515000593 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 465515000594 SEC-C motif; Region: SEC-C; cl12132 465515000595 hypothetical protein; Provisional; Region: PRK04233 465515000596 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 465515000597 salt bridge; other site 465515000598 non-specific DNA binding site [nucleotide binding]; other site 465515000599 sequence-specific DNA binding site [nucleotide binding]; other site 465515000600 Protein of unknown function (DUF952); Region: DUF952; cl01393 465515000601 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 465515000602 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 465515000603 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 465515000604 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 465515000605 active site 465515000606 catalytic residues [active] 465515000607 PA_subtilisin_like: Protease-associated domain containing subtilisin-like proteases. This group contains various PA domain-containing subtilisin-like proteases including melon cucumisin, Arabidopsis thaliana Ara12, a nodule specific serine protease...; Region: PA_subtilisin_like; cd02120 465515000608 PA/protease or protease-like domain interface [polypeptide binding]; other site 465515000609 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 465515000610 catalytic residues [active] 465515000611 aspartate kinase; Reviewed; Region: PRK06635 465515000612 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 465515000613 putative nucleotide binding site [chemical binding]; other site 465515000614 putative catalytic residues [active] 465515000615 putative Mg ion binding site [ion binding]; other site 465515000616 putative aspartate binding site [chemical binding]; other site 465515000617 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 465515000618 putative allosteric regulatory site; other site 465515000619 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 465515000620 putative allosteric regulatory residue; other site 465515000621 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 465515000622 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 465515000623 Walker A/P-loop; other site 465515000624 ATP binding site [chemical binding]; other site 465515000625 Q-loop/lid; other site 465515000626 ABC transporter signature motif; other site 465515000627 Walker B; other site 465515000628 D-loop; other site 465515000629 H-loop/switch region; other site 465515000630 recombination protein RecR; Reviewed; Region: recR; PRK00076 465515000631 RecR protein; Region: RecR; pfam02132 465515000632 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 465515000633 putative active site [active] 465515000634 putative metal-binding site [ion binding]; other site 465515000635 tetramer interface [polypeptide binding]; other site 465515000636 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07764 465515000637 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...; Region: AAA; cd00009 465515000638 Walker A motif; other site 465515000639 ATP binding site [chemical binding]; other site 465515000640 Walker B motif; other site 465515000641 arginine finger; other site 465515000642 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 465515000643 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 465515000644 FMN binding site [chemical binding]; other site 465515000645 dimer interface [polypeptide binding]; other site 465515000646 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 465515000647 active site 465515000648 HIGH motif; other site 465515000649 nucleotide binding site [chemical binding]; other site 465515000650 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 465515000651 active site 465515000652 KMSKS motif; other site 465515000653 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 465515000654 pyruvate dehydrogenase; Provisional; Region: PRK09124 465515000655 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 465515000656 PYR/PP interface [polypeptide binding]; other site 465515000657 tetramer interface [polypeptide binding]; other site 465515000658 dimer interface [polypeptide binding]; other site 465515000659 TPP binding site [chemical binding]; other site 465515000660 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 465515000661 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...; Region: TPP_POX; cd02014 465515000662 TPP-binding site [chemical binding]; other site 465515000663 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 465515000664 motif I; other site 465515000665 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 465515000666 motif II; other site 465515000667 Staphylococcal nuclease homologues; Region: SNc; smart00318 465515000668 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 465515000669 Catalytic site; other site 465515000670 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 465515000671 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 465515000672 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 465515000673 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 465515000674 Electron transfer flavoprotein, beta subunit [Energy production and conversion]; Region: FixA; COG2086 465515000675 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 465515000676 Ligand binding site [chemical binding]; other site 465515000677 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 465515000678 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 465515000679 Ligand Binding Site [chemical binding]; other site 465515000680 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 465515000681 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria...; Region: Cytochrome_b_N; cl00859 465515000682 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 465515000683 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 465515000684 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 465515000685 active site 465515000686 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 465515000687 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 465515000688 substrate binding site [chemical binding]; other site 465515000689 oxyanion hole (OAH) forming residues; other site 465515000690 trimer interface [polypeptide binding]; other site 465515000691 enoyl-CoA hydratase; Provisional; Region: PRK05862 465515000692 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 465515000693 substrate binding site [chemical binding]; other site 465515000694 oxyanion hole (OAH) forming residues; other site 465515000695 trimer interface [polypeptide binding]; other site 465515000696 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 465515000697 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515000698 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 465515000699 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 465515000700 tetrameric interface [polypeptide binding]; other site 465515000701 NAD binding site [chemical binding]; other site 465515000702 catalytic residues [active] 465515000703 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 465515000704 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515000705 NAD(P) binding site [chemical binding]; other site 465515000706 active site 465515000707 Transcriptional regulators [Transcription]; Region: MarR; COG1846 465515000708 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 465515000709 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 465515000710 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 465515000711 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 465515000712 acyl-coenzyme A oxidase; Region: PLN02526 465515000713 active site 465515000714 Protein of unknown function (DUF1275); Region: DUF1275; cl01453 465515000715 Cupin domain; Region: Cupin_2; cl09118 465515000716 glycine dehydrogenase; Provisional; Region: PRK05367 465515000717 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...; Region: GDC-P; cd00613 465515000718 tetramer interface [polypeptide binding]; other site 465515000719 pyridoxal 5'-phosphate binding site [chemical binding]; other site 465515000720 catalytic residue [active] 465515000721 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 465515000722 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 465515000723 catalytic residue [active] 465515000724 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 465515000725 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 465515000726 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 465515000727 Staphylococcal nuclease homologues; Region: SNc; smart00318 465515000728 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 465515000729 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 465515000730 active site 465515000731 phosphorylation site [posttranslational modification] 465515000732 intermolecular recognition site; other site 465515000733 dimerization interface [polypeptide binding]; other site 465515000734 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...; Region: LuxR_C_like; cd06170 465515000735 DNA binding residues [nucleotide binding] 465515000736 dimerization interface [polypeptide binding]; other site 465515000737 Histidine kinase; Region: HisKA_3; pfam07730 465515000738 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 465515000739 bifunctional hydroxy-methylpyrimidine kinase/ hydroxy-phosphomethylpyrimidine kinase; Reviewed; Region: PRK06427 465515000740 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 465515000741 substrate binding site [chemical binding]; other site 465515000742 dimer interface [polypeptide binding]; other site 465515000743 ATP binding site [chemical binding]; other site 465515000744 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 465515000745 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 465515000746 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 465515000747 acyl-coenzyme A oxidase; Region: PLN02526 465515000748 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 465515000749 active site 465515000750 Queuine tRNA-ribosyltransferase; Region: TGT; cl00409 465515000751 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 465515000752 Transposase, Mutator family; Region: Transposase_mut; pfam00872 465515000753 MULE transposase domain; Region: MULE; pfam10551 465515000754 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 465515000755 Transposase; Region: DDE_Tnp_ISL3; pfam01610 465515000756 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515000757 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 465515000758 catalytic triad [active] 465515000759 putative transposase OrfB; Reviewed; Region: PHA02517 465515000760 Integrase core domain; Region: rve; cl01316 465515000761 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 465515000762 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 465515000763 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 465515000764 phosphate binding site [ion binding]; other site 465515000765 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 465515000766 active site 465515000767 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 465515000768 ADP-glucose pyrophosphorylase [Carbohydrate transport and metabolism]; Region: GlgC; COG0448 465515000769 oligomer interface [polypeptide binding]; other site 465515000770 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 465515000771 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 465515000772 N-terminal domain of the actinomycetal Nei2 and related DNA glycosylases; Region: AcNei2_N; cd08971 465515000773 putative DNA binding site [nucleotide binding]; other site 465515000774 catalytic residue [active] 465515000775 putative H2TH interface [polypeptide binding]; other site 465515000776 putative catalytic residues [active] 465515000777 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 465515000778 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 465515000779 dimer interface [polypeptide binding]; other site 465515000780 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; cl00679 465515000781 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 465515000782 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 465515000783 nucleoside/Zn binding site; other site 465515000784 dimer interface [polypeptide binding]; other site 465515000785 catalytic motif [active] 465515000786 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 465515000787 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...; Region: trans_reg_C; cd00383 465515000788 DNA binding site [nucleotide binding] 465515000789 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 465515000790 catalytic core [active] 465515000791 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_GTP; cd00819 465515000792 Phosphoenolpyruvate carboxykinase; Region: PEPCK; pfam00821 465515000793 active site 465515000794 substrate-binding site [chemical binding]; other site 465515000795 metal-binding site [ion binding] 465515000796 GTP binding site [chemical binding]; other site 465515000797 Transposase, Mutator family; Region: Transposase_mut; pfam00872 465515000798 MULE transposase domain; Region: MULE; pfam10551 465515000799 Integrase core domain; Region: rve; cl01316 465515000800 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 465515000801 alpha-gamma subunit interface [polypeptide binding]; other site 465515000802 beta-gamma subunit interface [polypeptide binding]; other site 465515000803 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...; Region: Urease_beta; cd00407 465515000804 gamma-beta subunit interface [polypeptide binding]; other site 465515000805 alpha-beta subunit interface [polypeptide binding]; other site 465515000806 urease subunit alpha; Reviewed; Region: ureC; PRK13207 465515000807 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 465515000808 subunit interactions [polypeptide binding]; other site 465515000809 active site 465515000810 flap region; other site 465515000811 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 465515000812 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 C-...; Region: UreE; cd00571 465515000813 dimer interface [polypeptide binding]; other site 465515000814 catalytic residues [active] 465515000815 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 465515000816 UreF; Region: UreF; pfam01730 465515000817 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 465515000818 UreD urease accessory protein; Region: UreD; cl00530 465515000819 High-affinity nickel-transport protein; Region: NicO; cl00964 465515000820 High-affinity nickel-transport protein; Region: NicO; cl00964 465515000821 Urea transporter; Region: UT; cl01829 465515000822 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 465515000823 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 465515000824 heme-binding site [chemical binding]; other site 465515000825 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 465515000826 FAD binding pocket [chemical binding]; other site 465515000827 FAD binding motif [chemical binding]; other site 465515000828 phosphate binding motif [ion binding]; other site 465515000829 beta-alpha-beta structure motif; other site 465515000830 NAD binding pocket [chemical binding]; other site 465515000831 Heme binding pocket [chemical binding]; other site 465515000832 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 465515000833 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 465515000834 ATP binding site [chemical binding]; other site 465515000835 putative Mg++ binding site [ion binding]; other site 465515000836 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 465515000837 nucleotide binding region [chemical binding]; other site 465515000838 ATP-binding site [chemical binding]; other site 465515000839 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 465515000840 phosphomannomutase/phosphoglucomutase; Reviewed; Region: manB; PRK09542 465515000841 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 465515000842 active site 465515000843 substrate binding site [chemical binding]; other site 465515000844 metal binding site [ion binding]; metal-binding site 465515000845 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 465515000846 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 465515000847 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...; Region: PRCH; cl09959 465515000848 Domain of unknown function (DUF2382); Region: DUF2382; cl01590 465515000849 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4529 465515000850 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 465515000851 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 465515000852 generic binding surface II; other site 465515000853 generic binding surface I; other site 465515000854 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 465515000855 putative active site [active] 465515000856 putative catalytic site [active] 465515000857 putative Mg binding site IVb [ion binding]; other site 465515000858 putative phosphate binding site [ion binding]; other site 465515000859 putative DNA binding site [nucleotide binding]; other site 465515000860 putative Mg binding site IVa [ion binding]; other site 465515000861 bifunctional UDP-sugar hydrolase/5'-nucleotidase periplasmic precursor; Reviewed; Region: ushA; PRK09558 465515000862 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 465515000863 active site 465515000864 metal binding site [ion binding]; metal-binding site 465515000865 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 465515000866 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 465515000867 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 465515000868 NAD(P) binding site [chemical binding]; other site 465515000869 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; cl11391 465515000870 DNA polymerase III subunit delta'; Validated; Region: PRK07940 465515000871 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 465515000872 thymidylate kinase; Validated; Region: tmk; PRK00698 465515000873 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...; Region: TMPK; cd01672 465515000874 TMP-binding site; other site 465515000875 ATP-binding site [chemical binding]; other site 465515000876 Protein of unknown function (DUF2516); Region: DUF2516; pfam10724 465515000877 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 465515000878 Histidine phosphatase superfamily (branch 1); Region: His_Phos_1; pfam00300 465515000879 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 465515000880 catalytic core [active] 465515000881 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 465515000882 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 465515000883 PhoU domain; Region: PhoU; pfam01895 465515000884 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 trans-...; Region: HisKA; cd00082 465515000885 dimer interface [polypeptide binding]; other site 465515000886 phosphorylation site [posttranslational modification] 465515000887 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 465515000888 ATP binding site [chemical binding]; other site 465515000889 Mg2+ binding site [ion binding]; other site 465515000890 G-X-G motif; other site 465515000891 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 465515000892 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 465515000893 active site 465515000894 phosphorylation site [posttranslational modification] 465515000895 intermolecular recognition site; other site 465515000896 dimerization interface [polypeptide binding]; other site 465515000897 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...; Region: trans_reg_C; cd00383 465515000898 DNA binding site [nucleotide binding] 465515000899 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 465515000900 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 465515000901 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid...; Region: MECDP_synthase; cd00554 465515000902 homotrimer interaction site [polypeptide binding]; other site 465515000903 zinc binding site [ion binding]; other site 465515000904 CDP-binding sites; other site 465515000905 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 465515000906 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 465515000907 active site 465515000908 HIGH motif; other site 465515000909 nucleotide binding site [chemical binding]; other site 465515000910 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 465515000911 KMSKS motif; other site 465515000912 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 465515000913 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 465515000914 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 465515000915 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 465515000916 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: COG2984 465515000917 Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_uncharacterized_transporter; cd06325 465515000918 zinc binding site [ion binding]; other site 465515000919 putative ligand binding site [chemical binding]; other site 465515000920 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cd06574 465515000921 TM-ABC transporter signature motif; other site 465515000922 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: PhnK; COG1101 465515000923 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 465515000924 Walker A/P-loop; other site 465515000925 ATP binding site [chemical binding]; other site 465515000926 Q-loop/lid; other site 465515000927 ABC transporter signature motif; other site 465515000928 Walker B; other site 465515000929 D-loop; other site 465515000930 H-loop/switch region; other site 465515000931 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 465515000932 Glycosidases [Carbohydrate transport and metabolism]; Region: AmyA; COG0366 465515000933 glycogen branching enzyme; Provisional; Region: PRK05402 465515000934 Glycogen branching enzyme N-terminus domain. Glycogen branching enzyme (AKA 1,4 alpha glucan branching enzyme) catalyzes the formation of alpha-1,6 branch points in either glycogen or starch by cleavage of the alpha-1,4 glucosidic linkage yielding a...; Region: Glycogen_branching_enzyme_N_term; cd02855 465515000935 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 465515000936 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 465515000937 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 465515000938 Uncharacterized conserved protein [Function unknown]; Region: COG2128 465515000939 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 465515000940 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 465515000941 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 465515000942 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...; Region: Aldo_ket_red; cd06660 465515000943 active site 465515000944 catalytic tetrad [active] 465515000945 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 465515000946 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 465515000947 malto-oligosyltrehalose trehalohydrolase; Region: trehalose_TreZ; TIGR02402 465515000948 E or 'early' set of sugar utilizing enzymes which may be related to the immunoglobulin and/or fibronectin type III superfamilies. These domains are associated with different types of catalytic domains at either the N-terminal or C-terminal end; Region: E_set; cl09101 465515000949 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 465515000950 DsbA family; consists of DsbA and DsbA-like proteins, including DsbC, DsbG, glutathione (GSH) S-transferase kappa (GSTK), 2-hydroxychromene-2-carboxylate (HCCA) isomerase, an oxidoreductase (FrnE) presumed to be involved in frenolicin biosynthesis, a...; Region: DsbA_family; cd02972 465515000951 catalytic residues [active] 465515000952 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 465515000953 active site 465515000954 catalytic triad [active] 465515000955 Uncharacterized conserved protein [Function unknown]; Region: COG2966 465515000956 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 465515000957 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 465515000958 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 465515000959 ligand binding site [chemical binding]; other site 465515000960 active site 465515000961 UGI interface [polypeptide binding]; other site 465515000962 catalytic site [active] 465515000963 Protein of unknown function (DUF3263); Region: DUF3263; pfam11662 465515000964 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 465515000965 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 465515000966 ring oligomerisation interface [polypeptide binding]; other site 465515000967 ATP/Mg binding site [chemical binding]; other site 465515000968 stacking interactions; other site 465515000969 hinge regions; other site 465515000970 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 465515000971 Proteins of 100 residues with WXG; Region: WXG100; cl02005 465515000972 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 connected by an extended linker. The...; Region: HAMP; cl01054 465515000973 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 trans-...; Region: HisKA; cd00082 465515000974 dimer interface [polypeptide binding]; other site 465515000975 phosphorylation site [posttranslational modification] 465515000976 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 465515000977 ATP binding site [chemical binding]; other site 465515000978 Mg2+ binding site [ion binding]; other site 465515000979 G-X-G motif; other site 465515000980 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 465515000981 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 465515000982 active site 465515000983 phosphorylation site [posttranslational modification] 465515000984 intermolecular recognition site; other site 465515000985 dimerization interface [polypeptide binding]; other site 465515000986 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...; Region: trans_reg_C; cd00383 465515000987 DNA binding site [nucleotide binding] 465515000988 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 465515000989 DNA-binding site [nucleotide binding]; DNA binding site 465515000990 RNA-binding motif; other site 465515000991 Protein of unknown function (DUF3027); Region: DUF3027; pfam11228 465515000992 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 465515000993 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 465515000994 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 465515000995 catalytic residue [active] 465515000996 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 465515000997 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 465515000998 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 465515000999 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...; Region: HNHc; cd00085 465515001000 active site 465515001001 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 465515001002 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 465515001003 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 465515001004 Walker A/P-loop; other site 465515001005 ATP binding site [chemical binding]; other site 465515001006 Q-loop/lid; other site 465515001007 ABC transporter signature motif; other site 465515001008 Walker B; other site 465515001009 D-loop; other site 465515001010 H-loop/switch region; other site 465515001011 Uncharacterized protein conserved in bacteria (DUF2186); Region: DUF2186; cl02021 465515001012 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 465515001013 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 465515001014 UvrD/REP helicase; Region: UvrD-helicase; cl14126 465515001015 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 465515001016 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 465515001017 CoA-ligase; Region: Ligase_CoA; pfam00549 465515001018 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 465515001019 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515001020 CoA-ligase; Region: Ligase_CoA; pfam00549 465515001021 Ferritin-CCC1, N-terminal ferritin-like diiron-binding domain; Region: Ferritin_CCC1_N; cd01044 465515001022 diiron binding motif [ion binding]; other site 465515001023 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_2; cd02433 465515001024 Domain of unknown function DUF; Region: DUF202; cl09954 465515001025 formaldehyde dehydrogenase, glutathione-independent; Region: fdhA_non_GSH; TIGR02819 465515001026 Pseudomonas putida aldehyde-dismutating formaldehyde dehydrogenase (PFDH); Region: PFDH_like; cd08282 465515001027 NAD binding site [chemical binding]; other site 465515001028 catalytic Zn binding site [ion binding]; other site 465515001029 structural Zn binding site [ion binding]; other site 465515001030 Sodium:solute symporter family; Region: SSF; cl00456 465515001031 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 465515001032 Cupin domain; Region: Cupin_2; cl09118 465515001033 Arginase family; Region: Arginase; cl00306 465515001034 Thiamine pyrophosphate-requiring enzymes [acetolactate synthase, pyruvate dehydrogenase (cytochrome), glyoxylate carboligase, phosphonopyruvate decarboxylase] [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvB; COG0028 465515001035 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 465515001036 PYR/PP interface [polypeptide binding]; other site 465515001037 dimer interface [polypeptide binding]; other site 465515001038 TPP binding site [chemical binding]; other site 465515001039 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 465515001040 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...; Region: TPP_enzymes; cd00568 465515001041 TPP-binding site [chemical binding]; other site 465515001042 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl01383 465515001043 Active site [active] 465515001044 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 465515001045 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 465515001046 active site 465515001047 Uncharacterized conserved protein (DUF2183); Region: DUF2183; cl02012 465515001048 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...; Region: 4HBT; cd00586 465515001049 active site 465515001050 glutamate dehydrogenase; Provisional; Region: PRK09414 465515001051 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 465515001052 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 465515001053 NAD(P) binding site [chemical binding]; other site 465515001054 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 465515001055 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...; Region: GT1_like_2; cd03814 465515001056 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 465515001057 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 465515001058 active site 465515001059 substrate binding site [chemical binding]; other site 465515001060 cosubstrate binding site; other site 465515001061 catalytic site [active] 465515001062 benzoate transport; Region: 2A0115; TIGR00895 465515001063 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 465515001064 putative substrate translocation pore; other site 465515001065 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 465515001066 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 5-aminoimidazole-4-carboxamide-; Region: IMPCH; cd01421 465515001067 purine monophosphate binding site [chemical binding]; other site 465515001068 dimer interface [polypeptide binding]; other site 465515001069 putative catalytic residues [active] 465515001070 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 465515001071 Mg/Co/Ni transporter MgtE (contains CBS domain) [Inorganic ion transport and metabolism]; Region: MgtE; COG2239 465515001072 MgtE intracellular N domain; Region: MgtE_N; cl15244 465515001073 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 465515001074 Divalent cation transporter; Region: MgtE; cl00786 465515001075 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 465515001076 isocitrate dehydrogenase, NADP-dependent, monomeric type; Region: monomer_idh; TIGR00178 465515001077 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 465515001078 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_3; cd07820 465515001079 putative hydrophobic ligand binding site [chemical binding]; other site 465515001080 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515001081 TIGR01777 family protein; Region: yfcH 465515001082 NAD(P) binding site [chemical binding]; other site 465515001083 active site 465515001084 Glutaminase; Region: Glutaminase; cl00907 465515001085 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 465515001086 ligand binding site [chemical binding]; other site 465515001087 flexible hinge region; other site 465515001088 ATP-dependent helicase HrpB; Region: DEAH_box_HrpB; TIGR01970 465515001089 Helicase associated domain (HA2); Region: HA2; cl04503 465515001090 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 465515001091 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 465515001092 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 465515001093 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...; Region: TM_PBP2; cd06261 465515001094 dimer interface [polypeptide binding]; other site 465515001095 conserved gate region; other site 465515001096 putative PBP binding loops; other site 465515001097 ABC-ATPase subunit interface; other site 465515001098 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 465515001099 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...; Region: TM_PBP2; cd06261 465515001100 dimer interface [polypeptide binding]; other site 465515001101 conserved gate region; other site 465515001102 putative PBP binding loops; other site 465515001103 ABC-ATPase subunit interface; other site 465515001104 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 465515001105 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 465515001106 Walker A/P-loop; other site 465515001107 ATP binding site [chemical binding]; other site 465515001108 Q-loop/lid; other site 465515001109 ABC transporter signature motif; other site 465515001110 Walker B; other site 465515001111 D-loop; other site 465515001112 H-loop/switch region; other site 465515001113 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515001114 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 465515001115 Gamma carbonic anhydrase-like: This family is composed of gamma carbonic anhydrase (CA), Ferripyochelin Binding Protein (FBP), E. coli paaY protein, and similar proteins. CAs are zinc-containing enzymes that catalyze the reversible hydration of carbon...; Region: LbH_gamma_CA_like; cd04645 465515001116 trimer interface [polypeptide binding]; other site 465515001117 putative metal binding site [ion binding]; other site 465515001118 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 465515001119 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 465515001120 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 465515001121 putative active site [active] 465515001122 putative substrate binding site [chemical binding]; other site 465515001123 putative cosubstrate binding site; other site 465515001124 catalytic site [active] 465515001125 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 465515001126 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 465515001127 tetramer interface [polypeptide binding]; other site 465515001128 heme binding pocket [chemical binding]; other site 465515001129 NADPH binding site [chemical binding]; other site 465515001130 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 465515001131 Transposase; Region: DDE_Tnp_ISL3; pfam01610 465515001132 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 465515001133 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...; Region: SHMT; cd00378 465515001134 dimer interface [polypeptide binding]; other site 465515001135 glycine-pyridoxal phosphate binding site [chemical binding]; other site 465515001136 active site 465515001137 folate binding site [chemical binding]; other site 465515001138 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14193 465515001139 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 465515001140 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 465515001141 homodimer interface [polypeptide binding]; other site 465515001142 NADP binding site [chemical binding]; other site 465515001143 substrate binding site [chemical binding]; other site 465515001144 Streptococcal 67 kDa myosin-cross-reactive antigen like family; Region: Strep_67kDa_ant; cl01939 465515001145 Myosin-crossreactive antigen [Function unknown]; Region: COG4716 465515001146 nodulation ABC transporter NodI; Provisional; Region: PRK13537 465515001147 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 465515001148 Walker A/P-loop; other site 465515001149 ATP binding site [chemical binding]; other site 465515001150 Q-loop/lid; other site 465515001151 ABC transporter signature motif; other site 465515001152 Walker B; other site 465515001153 D-loop; other site 465515001154 H-loop/switch region; other site 465515001155 ABC-2 type transporter; Region: ABC2_membrane; cl11417 465515001156 ABC-2 type transporter; Region: ABC2_membrane; cl11417 465515001157 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 465515001158 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 465515001159 putative active site [active] 465515001160 putative DNA binding site [nucleotide binding]; other site 465515001161 putative phosphate binding site [ion binding]; other site 465515001162 putative catalytic site [active] 465515001163 metal binding site A [ion binding]; metal-binding site 465515001164 putative AP binding site [nucleotide binding]; other site 465515001165 putative metal binding site B [ion binding]; other site 465515001166 tryptophanyl-tRNA synthetase; Region: trpS; TIGR00233 465515001167 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 465515001168 active site 465515001169 HIGH motif; other site 465515001170 dimer interface [polypeptide binding]; other site 465515001171 KMSKS motif; other site 465515001172 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 465515001173 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 465515001174 Walker A/P-loop; other site 465515001175 ATP binding site [chemical binding]; other site 465515001176 Q-loop/lid; other site 465515001177 ABC transporter signature motif; other site 465515001178 Walker B; other site 465515001179 D-loop; other site 465515001180 H-loop/switch region; other site 465515001181 FtsX-like permease family; Region: FtsX; pfam02687 465515001182 Acidobacterial duplicated orphan permease; Region: ADOP; TIGR03434 465515001183 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 465515001184 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08205 465515001185 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515001186 domain; Region: Succ_DH_flav_C; pfam02910 465515001187 Succinate:quinone oxidoreductase (SQR) Type A subfamily, Succinate dehydrogenase D (SdhD)-like subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. Members of this subfamily reduce low potential...; Region: SQR_TypeA_SdhD_like; cd03500 465515001188 putative Iron-sulfur protein interface [polypeptide binding]; other site 465515001189 putative proximal heme binding site [chemical binding]; other site 465515001190 putative SdhC-like subunit interface [polypeptide binding]; other site 465515001191 putative distal heme binding site [chemical binding]; other site 465515001192 Succinate:quinone oxidoreductase (SQR) Type A subfamily, Succinate dehydrogenase C (SdhC)-like subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. Members of this subfamily reduce low potential...; Region: SQR_TypeA_SdhC_like; cd03501 465515001193 putative Iron-sulfur protein interface [polypeptide binding]; other site 465515001194 putative proximal heme binding site [chemical binding]; other site 465515001195 putative SdhD-like interface [polypeptide binding]; other site 465515001196 putative distal heme binding site [chemical binding]; other site 465515001197 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 465515001198 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 465515001199 Substrate binding site [chemical binding]; other site 465515001200 Cupin domain; Region: Cupin_2; cl09118 465515001201 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 465515001202 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like4; cd08014 465515001203 metal binding site [ion binding]; metal-binding site 465515001204 putative dimer interface [polypeptide binding]; other site 465515001205 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 465515001206 Transposase; Region: DDE_Tnp_ISL3; pfam01610 465515001207 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 465515001208 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 465515001209 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and...; Region: ABC_Carb_Monos_I; cd03216 465515001210 Walker A/P-loop; other site 465515001211 ATP binding site [chemical binding]; other site 465515001212 Q-loop/lid; other site 465515001213 ABC transporter signature motif; other site 465515001214 Walker B; other site 465515001215 D-loop; other site 465515001216 H-loop/switch region; other site 465515001217 This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (; Region: ABC_Carb_Monos_II; cd03215 465515001218 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (; Region: TM_PBP1_transp_TpRbsC_like; cd06580 465515001219 TM-ABC transporter signature motif; other site 465515001220 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (; Region: TM_PBP1_transp_TpRbsC_like; cd06580 465515001221 TM-ABC transporter signature motif; other site 465515001222 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 465515001223 active site 465515001224 catalytic motif [active] 465515001225 Zn binding site [ion binding]; other site 465515001226 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 465515001227 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 465515001228 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 465515001229 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 465515001230 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 465515001231 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...; Region: metallo-dependent_hydrolases; cl00281 465515001232 active site 465515001233 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 465515001234 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 465515001235 enolase; Provisional; Region: eno; PRK00077 465515001236 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 465515001237 dimer interface [polypeptide binding]; other site 465515001238 metal binding site [ion binding]; metal-binding site 465515001239 substrate binding pocket [chemical binding]; other site 465515001240 Septum formation initiator; Region: DivIC; cl11433 465515001241 Protein of unknown function (DUF501); Region: DUF501; cl00652 465515001242 exopolyphosphatase; Region: exo_poly_only; TIGR03706 465515001243 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 465515001244 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 465515001245 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515001246 BAX inhibitor (BI)-1/YccA-like protein family; Region: BI-1-like; cl00473 465515001247 Aldose 1-epimerase, similar to Escherichia coli YihR; Region: Aldose_epim_Ec_YihR; cd09022 465515001248 active site 465515001249 catalytic residues [active] 465515001250 Domain of unknown function DUF20; Region: UPF0118; cl00465 465515001251 threonine dehydratase; Provisional; Region: PRK08198 465515001252 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 465515001253 tetramer interface [polypeptide binding]; other site 465515001254 pyridoxal 5'-phosphate binding site [chemical binding]; other site 465515001255 catalytic residue [active] 465515001256 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 465515001257 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 465515001258 domain; Region: GreA_GreB_N; pfam03449 465515001259 C-term; Region: GreA_GreB; pfam01272 465515001260 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 465515001261 Haemolysin-III related; Region: HlyIII; cl03831 465515001262 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 465515001263 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 465515001264 catalytic residue [active] 465515001265 putative FPP diphosphate binding site; other site 465515001266 putative FPP binding hydrophobic cleft; other site 465515001267 dimer interface [polypeptide binding]; other site 465515001268 putative IPP diphosphate binding site; other site 465515001269 Rhomboid family; Region: Rhomboid; cl11446 465515001270 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 465515001271 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 465515001272 putative active site [active] 465515001273 PhoH-like protein; Region: PhoH; cl12134 465515001274 fumarate hydratase; Reviewed; Region: fumC; PRK00485 465515001275 Class II fumarases; Region: Fumarase_classII; cd01362 465515001276 active site 465515001277 tetramer interface [polypeptide binding]; other site 465515001278 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeC; cd03378 465515001279 active site clefts [active] 465515001280 zinc binding site [ion binding]; other site 465515001281 dimer interface [polypeptide binding]; other site 465515001282 Fructose-1,6-bisphosphatase/sedoheptulose 1,7-bisphosphatase and related proteins [Carbohydrate transport and metabolism]; Region: GlpX; COG1494 465515001283 Bacterial fructose-1,6-bisphosphatase, glpX-encoded. A dimeric enzyme dependent on Mg(2+). glpX-encoded FPBase (FBPase class II) differs from other members of the inositol-phosphatase superfamily by permutation of secondary structure elements. The core...; Region: FBPase_glpX; cd01516 465515001284 putative active site [active] 465515001285 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 465515001286 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 465515001287 mannose-6-phosphate isomerase, class I; Region: manA; TIGR00218 465515001288 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 465515001289 AIR carboxylase; Region: AIRC; cl00310 465515001290 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 465515001291 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 465515001292 GtrA-like protein; Region: GtrA; cl00971 465515001293 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 465515001294 Transcription factor WhiB; Region: Whib; pfam02467 465515001295 Protein of unknown function (DUF3499); Region: DUF3499; pfam12005 465515001296 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 465515001297 Integrase core domain; Region: rve; cl01316 465515001298 Adenosylhomocysteinase; Provisional; Region: PTZ00075 465515001299 S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado...; Region: AdoHcyase; cd00401 465515001300 oligomerization interface [polypeptide binding]; other site 465515001301 active site 465515001302 NAD+ binding site [chemical binding]; other site 465515001303 Protein of unknown function (DUF1461); Region: DUF1461; cl01862 465515001304 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 465515001305 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 465515001306 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 465515001307 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT; cl01961 465515001308 Dolichyl-phosphate-mannose--protein O-mannosyl transferase [Posttranslational modification, protein turnover, chaperones]; Region: PMT1; COG1928 465515001309 Predicted methyltransferases [General function prediction only]; Region: COG0313 465515001310 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 465515001311 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 465515001312 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 465515001313 tetramerization interface [polypeptide binding]; other site 465515001314 NAD(P) binding site [chemical binding]; other site 465515001315 catalytic residues [active] 465515001316 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 465515001317 putative deoxyribonuclease YjjV; Provisional; Region: PRK11449 465515001318 active site 465515001319 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 465515001320 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK03188 465515001321 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 465515001322 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 465515001323 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...; Region: ABCF_EF-3; cd03221 465515001324 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...; Region: ABCF_EF-3; cd03221 465515001325 ABC transporter; Region: ABC_tran_2; pfam12848 465515001326 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...; Region: ABCF_EF-3; cd03221 465515001327 Transposase, Mutator family; Region: Transposase_mut; pfam00872 465515001328 MULE transposase domain; Region: MULE; pfam10551 465515001329 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14352 465515001330 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 465515001331 Substrate binding site [chemical binding]; other site 465515001332 Mg++ binding site [ion binding]; other site 465515001333 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 465515001334 active site 465515001335 substrate binding site [chemical binding]; other site 465515001336 CoA binding site [chemical binding]; other site 465515001337 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; cl00973 465515001338 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 465515001339 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 465515001340 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 465515001341 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 465515001342 Catalytic site [active] 465515001343 Coenzyme PQQ synthesis protein D (PqqD); Region: PqqD; cl05126 465515001344 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 465515001345 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 465515001346 5S rRNA interface [nucleotide binding]; other site 465515001347 CTC domain interface [polypeptide binding]; other site 465515001348 L16 interface [polypeptide binding]; other site 465515001349 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 465515001350 putative active site [active] 465515001351 catalytic residue [active] 465515001352 Protein of unknown function (DUF2505); Region: DUF2505; pfam10698 465515001353 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 465515001354 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 465515001355 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 465515001356 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 465515001357 ATP binding site [chemical binding]; other site 465515001358 putative Mg++ binding site [ion binding]; other site 465515001359 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 465515001360 nucleotide binding region [chemical binding]; other site 465515001361 ATP-binding site [chemical binding]; other site 465515001362 TRCF domain; Region: TRCF; cl04088 465515001363 Predicted O-acyltransferase [General function prediction only]; Region: COG3274; cl00792 465515001364 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 465515001365 intersubunit interface [polypeptide binding]; other site 465515001366 active site 465515001367 catalytic residue [active] 465515001368 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2)...; Region: phosphohexomutase; cl03757 465515001369 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 465515001370 active site 465515001371 substrate binding site [chemical binding]; other site 465515001372 metal binding site [ion binding]; metal-binding site 465515001373 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 465515001374 nucleotide sugar dehydrogenase; Region: NDP-sugDHase; TIGR03026 465515001375 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515001376 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 465515001377 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515001378 flavoprotein disulfide reductase; Reviewed; Region: PRK07845 465515001379 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515001380 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515001381 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 465515001382 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 465515001383 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 465515001384 metabolite-proton symporter; Region: 2A0106; TIGR00883 465515001385 putative substrate translocation pore; other site 465515001386 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 465515001387 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 465515001388 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 465515001389 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 465515001390 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 465515001391 carboxyltransferase (CT) interaction site; other site 465515001392 biotinylation site [posttranslational modification]; other site 465515001393 Maf-like protein; Region: Maf; pfam02545 465515001394 Maf_Ham1. Maf, a nucleotide binding protein, has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea. A Ham1-related protein from Methanococcus jannaschii is a novel NTPase that has been shown to hydrolyze nonstandard...; Region: Maf_Ham1; cl00276 465515001395 putative active site [active] 465515001396 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 465515001397 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 465515001398 active site 465515001399 catalytic triad [active] 465515001400 oxyanion hole [active] 465515001401 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 465515001402 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 465515001403 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 465515001404 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515001405 NAD(P) binding site [chemical binding]; other site 465515001406 active site 465515001407 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 465515001408 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...; Region: Aldo_ket_red; cd06660 465515001409 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 465515001410 active site 465515001411 catalytic tetrad [active] 465515001412 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 465515001413 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515001414 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 465515001415 colanic acid biosynthesis acetyltransferase WcaF; Region: WcaF; TIGR04008 465515001416 wcaF-like: This group is composed of the protein product of the E. coli wcaF gene and similar proteins. WcaF is part of the gene cluster responsible for the biosynthesis of the extracellular polysaccharide colanic acid. The wcaF protein is predicted to...; Region: LbH_wcaF_like; cd05825 465515001417 putative trimer interface [polypeptide binding]; other site 465515001418 putative active site [active] 465515001419 putative substrate binding site [chemical binding]; other site 465515001420 putative CoA binding site [chemical binding]; other site 465515001421 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 465515001422 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 465515001423 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 465515001424 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 465515001425 MatE; Region: MatE; cl10513 465515001426 Chain length determinant protein; Region: Wzz; cl01623 465515001427 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 465515001428 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 465515001429 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 465515001430 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 465515001431 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 465515001432 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 465515001433 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 465515001434 cyclase homology domain; Region: CHD; cd07302 465515001435 nucleotidyl binding site; other site 465515001436 metal binding site [ion binding]; metal-binding site 465515001437 dimer interface [polypeptide binding]; other site 465515001438 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 465515001439 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 465515001440 Active site [active] 465515001441 Ligase N family; Region: LIGANc; smart00532 465515001442 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 465515001443 nucleotide binding pocket [chemical binding]; other site 465515001444 K-X-D-G motif; other site 465515001445 catalytic site [active] 465515001446 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 465515001447 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 465515001448 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 465515001449 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 465515001450 Dimer interface [polypeptide binding]; other site 465515001451 BRCT sequence motif; other site 465515001452 FIG, FBPase/IMPase/glpX-like domain. A superfamily of metal-dependent phosphatases with various substrates. Fructose-1,6-bisphospatase (both the major and the glpX-encoded variant) hydrolyze fructose-1,6,-bisphosphate to fructose-6-phosphate in...; Region: FIG; cl00289 465515001453 active site 465515001454 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 465515001455 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 465515001456 Coenzyme A binding pocket [chemical binding]; other site 465515001457 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 465515001458 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 465515001459 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 465515001460 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 465515001461 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 465515001462 GatB domain; Region: GatB_Yqey; cl11497 465515001463 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK07812 465515001464 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 465515001465 homodimer interface [polypeptide binding]; other site 465515001466 substrate-cofactor binding pocket; other site 465515001467 pyridoxal 5'-phosphate binding site [chemical binding]; other site 465515001468 catalytic residue [active] 465515001469 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 465515001470 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 465515001471 Members of the SGNH-hydrolase superfamily, 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_like_1; cd01832 465515001472 active site 465515001473 catalytic triad [active] 465515001474 oxyanion hole [active] 465515001475 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 465515001476 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 465515001477 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 465515001478 glycyl-tRNA synthetase; Provisional; Region: PRK04173 465515001479 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...; Region: GlyRS-like_core; cd00774 465515001480 dimer interface [polypeptide binding]; other site 465515001481 motif 1; other site 465515001482 active site 465515001483 motif 2; other site 465515001484 motif 3; other site 465515001485 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 465515001486 anticodon binding site; other site 465515001487 Cation efflux family; Region: Cation_efflux; cl00316 465515001488 putative FMN-dependent luciferase-like monooxygenase, KPN_01858 family; Region: LLM_KPN_01858; TIGR04027 465515001489 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 465515001490 DNA binding residues [nucleotide binding] 465515001491 dimer interface [polypeptide binding]; other site 465515001492 metal binding site [ion binding]; metal-binding site 465515001493 mercuric reductase; Region: MerA; TIGR02053 465515001494 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515001495 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 465515001496 Plasmid replication protein; Region: Rep_2; pfam01719 465515001497 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 465515001498 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 465515001499 catalytic residues [active] 465515001500 Recombinase; Region: Recombinase; pfam07508 465515001501 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 465515001502 ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other...; Region: ANK; cd00204 465515001503 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 465515001504 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 465515001505 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...; Region: DUS_like_FMN; cd02801 465515001506 FMN binding site [chemical binding]; other site 465515001507 active site 465515001508 catalytic residues [active] 465515001509 substrate binding site [chemical binding]; other site 465515001510 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 465515001511 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 465515001512 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 465515001513 Walker A/P-loop; other site 465515001514 ATP binding site [chemical binding]; other site 465515001515 Q-loop/lid; other site 465515001516 ABC transporter signature motif; other site 465515001517 Walker B; other site 465515001518 D-loop; other site 465515001519 H-loop/switch region; other site 465515001520 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 465515001521 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...; Region: TM_PBP2; cl00427 465515001522 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...; Region: TM_PBP2; cl00427 465515001523 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 465515001524 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes...; Region: SIRT5_Af1_CobB; cd01412 465515001525 NAD+ binding site [chemical binding]; other site 465515001526 substrate binding site [chemical binding]; other site 465515001527 Zn binding site [ion binding]; other site 465515001528 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 465515001529 aminodeoxychorismate synthase, component I, clade 2; Region: PabB-clade2; TIGR01824 465515001530 chorismate binding enzyme; Region: Chorismate_bind; cl10555 465515001531 CHC2 zinc finger; Region: zf-CHC2; cl02597 465515001532 DNA primase, catalytic core; Region: dnaG; TIGR01391 465515001533 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 465515001534 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 465515001535 active site 465515001536 metal binding site [ion binding]; metal-binding site 465515001537 interdomain interaction site; other site 465515001538 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 465515001539 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 465515001540 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 465515001541 Protein of unknown function (DUF2637); Region: DUF2637; pfam10935 465515001542 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 465515001543 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 465515001544 Protein of unknown function (DUF2984); Region: DUF2984; cl12752 465515001545 Transposase, Mutator family; Region: Transposase_mut; pfam00872 465515001546 MULE transposase domain; Region: MULE; pfam10551 465515001547 AAA-like domain; Region: AAA_10; pfam12846 465515001548 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 465515001549 Walker A motif; other site 465515001550 ATP binding site [chemical binding]; other site 465515001551 Walker B motif; other site 465515001552 Protein of unknown function (DUF968); Region: DUF968; pfam06147 465515001553 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 465515001554 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 465515001555 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 465515001556 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 465515001557 putative transposase OrfB; Reviewed; Region: PHA02517 465515001558 Integrase core domain; Region: rve; cl01316 465515001559 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; cl01116 465515001560 Phage integrase family; Region: Phage_integrase; pfam00589 465515001561 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 465515001562 DNA binding site [nucleotide binding] 465515001563 Int/Topo IB signature motif; other site 465515001564 active site 465515001565 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 465515001566 Phage integrase family; Region: Phage_integrase; pfam00589 465515001567 DNA binding site [nucleotide binding] 465515001568 Int/Topo IB signature motif; other site 465515001569 active site 465515001570 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 465515001571 Protein of unknown function DUF72; Region: DUF72; cl00777 465515001572 oxidoreductase; Provisional; Region: PRK06128 465515001573 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515001574 NAD(P) binding site [chemical binding]; other site 465515001575 active site 465515001576 nuc_hydro: Nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base. These enzymes vary in their substrate specificity. This group contains eukaryotic, bacterial and archeal...; Region: nuc_hydro; cl00226 465515001577 active site 465515001578 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...; Region: Aldo_ket_red; cd06660 465515001579 active site 465515001580 catalytic tetrad [active] 465515001581 Protein of unknown function (DUF1469); Region: DUF1469; cl12095 465515001582 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 465515001583 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 465515001584 This family is most closely related to the GT1 family of glycosyltransferases. UDP-glucose-diacylglycerol glucosyltransferase (UGDG; also known as 1,2-diacylglycerol 3-glucosyltransferase) catalyzes the transfer of glucose from UDP-glucose to 1,2-...; Region: GT1_UGDG_like; cd03817 465515001585 putative ADP-binding pocket [chemical binding]; other site 465515001586 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 465515001587 putative peptidoglycan binding site; other site 465515001588 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 465515001589 NlpC/P60 family; Region: NLPC_P60; cl11438 465515001590 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 465515001591 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 465515001592 rRNA interaction site [nucleotide binding]; other site 465515001593 S8 interaction site; other site 465515001594 putative laminin-1 binding site; other site 465515001595 elongation factor Ts; Provisional; Region: tsf; PRK09377 465515001596 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 465515001597 Elongation factor TS; Region: EF_TS; pfam00889 465515001598 Elongation factor TS; Region: EF_TS; pfam00889 465515001599 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...; Region: AAK_UMPK-PyrH-Ec; cd04254 465515001600 putative nucleotide binding site [chemical binding]; other site 465515001601 uridine monophosphate binding site [chemical binding]; other site 465515001602 homohexameric interface [polypeptide binding]; other site 465515001603 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 465515001604 hinge region; other site 465515001605 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 465515001606 DivIVA domain repeat protein; Region: divI1A_rptt_fam; TIGR03543 465515001607 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 465515001608 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 465515001609 tetramer interface [polypeptide binding]; other site 465515001610 TPP-binding site [chemical binding]; other site 465515001611 heterodimer interface [polypeptide binding]; other site 465515001612 phosphorylation loop region [posttranslational modification] 465515001613 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 465515001614 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 465515001615 alpha subunit interface [polypeptide binding]; other site 465515001616 TPP binding site [chemical binding]; other site 465515001617 heterodimer interface [polypeptide binding]; other site 465515001618 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 465515001619 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 465515001620 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 465515001621 E3 interaction surface; other site 465515001622 lipoyl attachment site [posttranslational modification]; other site 465515001623 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 465515001624 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 465515001625 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 465515001626 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 465515001627 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 465515001628 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 465515001629 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 465515001630 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 465515001631 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 465515001632 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 465515001633 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 465515001634 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 465515001635 carboxyltransferase (CT) interaction site; other site 465515001636 biotinylation site [posttranslational modification]; other site 465515001637 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 465515001638 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 465515001639 active site 465515001640 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 465515001641 putative active site [active] 465515001642 putative catalytic site [active] 465515001643 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 465515001644 Protein of unknown function, DUF485; Region: DUF485; cl01231 465515001645 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 465515001646 Sodium:solute symporter family; Region: SSF; cl00456 465515001647 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 465515001648 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 465515001649 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 465515001650 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 465515001651 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 465515001652 active site 465515001653 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...; Region: PDZ_metalloprotease; cd00989 465515001654 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 465515001655 putative substrate binding region [chemical binding]; other site 465515001656 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 465515001657 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate synthase; Region: ispG_gcpE; TIGR00612 465515001658 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 465515001659 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 465515001660 prolyl-tRNA synthetase; Provisional; Region: PRK09194 465515001661 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...; Region: ProRS_core_prok; cd00779 465515001662 dimer interface [polypeptide binding]; other site 465515001663 motif 1; other site 465515001664 active site 465515001665 motif 2; other site 465515001666 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cl00022 465515001667 putative deacylase active site [active] 465515001668 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 465515001669 active site 465515001670 motif 3; other site 465515001671 HGTP anticodon binding domain, as found at the C-terminus of histidyl, glycyl, threonyl and prolyl tRNA synthetases, which are classified as a group of class II aminoacyl-tRNA synthetases (aaRS). In aaRSs, the anticodon binding domain is responsible...; Region: HGTP_anticodon; cl00266 465515001672 anticodon binding site; other site 465515001673 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 465515001674 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...; Region: Sm_like; cl00259 465515001675 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 465515001676 NusA N-terminal domain; Region: NusA_N; pfam08529 465515001677 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...; Region: S1_NusA; cd04455 465515001678 RNA binding site [nucleotide binding]; other site 465515001679 homodimer interface [polypeptide binding]; other site 465515001680 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 465515001681 G-X-X-G motif; other site 465515001682 Ylxr homologs; group of conserved hypothetical bacterial proteins of unknown function; structure revealed putative RNA binding cleft; proteins are encoded by an operon that includes other proteins involved in transcription and/or translation; Region: YlxR; cl00189 465515001683 putative RNA binding cleft [nucleotide binding]; other site 465515001684 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 465515001685 translation initiation factor IF-2; Region: IF-2; TIGR00487 465515001686 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 465515001687 IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases...; Region: IF2_eIF5B; cd01887 465515001688 G1 box; other site 465515001689 putative GEF interaction site [polypeptide binding]; other site 465515001690 GTP/Mg2+ binding site [chemical binding]; other site 465515001691 Switch I region; other site 465515001692 G2 box; other site 465515001693 G3 box; other site 465515001694 Switch II region; other site 465515001695 G4 box; other site 465515001696 G5 box; other site 465515001697 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...; Region: IF2_mtIF2_II; cd03702 465515001698 Translation-initiation factor 2; Region: IF-2; pfam11987 465515001699 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...; Region: mtIF2_IVc; cd03692 465515001700 Ribosome-binding factor A; Region: RBFA; cl00542 465515001701 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK03287 465515001702 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...; Region: PseudoU_synth_EcTruB; cd02573 465515001703 RNA binding site [nucleotide binding]; other site 465515001704 active site 465515001705 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 465515001706 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 465515001707 active site 465515001708 nucleotide binding site [chemical binding]; other site 465515001709 HIGH motif; other site 465515001710 KMSKS motif; other site 465515001711 Riboflavin kinase; Region: Flavokinase; cl03312 465515001712 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 465515001713 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 465515001714 S-adenosylmethionine binding site [chemical binding]; other site 465515001715 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...; Region: Ribosomal_S15p_S13e; cd00353 465515001716 16S/18S rRNA binding site [nucleotide binding]; other site 465515001717 S13e-L30e interaction site [polypeptide binding]; other site 465515001718 25S rRNA binding site [nucleotide binding]; other site 465515001719 guanosine pentaphosphate synthetase I/polynucleotide phosphorylase; Region: pppGpp_PNP; TIGR02696 465515001720 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 465515001721 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 465515001722 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 465515001723 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 465515001724 putative nucleic acid binding region [nucleotide binding]; other site 465515001725 G-X-X-G motif; other site 465515001726 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 465515001727 RNA binding site [nucleotide binding]; other site 465515001728 domain interface; other site 465515001729 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 465515001730 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 465515001731 dihydrodipicolinate reductase; Provisional; Region: PRK00048 465515001732 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515001733 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 465515001734 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 465515001735 dihydrodipicolinate synthase; Region: dapA; TIGR00674 465515001736 dimer interface [polypeptide binding]; other site 465515001737 active site 465515001738 catalytic residue [active] 465515001739 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 465515001740 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 465515001741 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 465515001742 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 465515001743 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 465515001744 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 465515001745 Competence-damaged protein; Region: CinA; cl00666 465515001746 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15258 465515001747 Protein of unknown function (DUF3046); Region: DUF3046; pfam11248 465515001748 recombinase A; Provisional; Region: recA; PRK09354 465515001749 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 465515001750 hexamer interface [polypeptide binding]; other site 465515001751 Walker A motif; other site 465515001752 ATP binding site [chemical binding]; other site 465515001753 Walker B motif; other site 465515001754 RecX family; Region: RecX; cl00936 465515001755 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14326 465515001756 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 465515001757 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 465515001758 FeS/SAM binding site; other site 465515001759 TRAM domain; Region: TRAM; cl01282 465515001760 IPP transferase; Region: IPPT; cl00403 465515001761 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 465515001762 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 465515001763 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 465515001764 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 465515001765 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 465515001766 S-adenosylmethionine binding site [chemical binding]; other site 465515001767 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 465515001768 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515001769 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 465515001770 HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual...; Region: HflX; cd01878 465515001771 G1 box; other site 465515001772 GTP/Mg2+ binding site [chemical binding]; other site 465515001773 Switch I region; other site 465515001774 G2 box; other site 465515001775 G3 box; other site 465515001776 Switch II region; other site 465515001777 G4 box; other site 465515001778 G5 box; other site 465515001779 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 465515001780 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 465515001781 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 465515001782 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 465515001783 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; cl09110 465515001784 transmembrane helices; other site 465515001785 LexA repressor; Validated; Region: PRK00215 465515001786 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 465515001787 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 (...; Region: S24_LexA-like; cd06529 465515001788 Catalytic site [active] 465515001789 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 465515001790 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 465515001791 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 465515001792 pyridoxal 5'-phosphate binding site [chemical binding]; other site 465515001793 homodimer interface [polypeptide binding]; other site 465515001794 catalytic residue [active] 465515001795 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 465515001796 putative active site pocket [active] 465515001797 4-fold oligomerization interface [polypeptide binding]; other site 465515001798 metal binding residues [ion binding]; metal-binding site 465515001799 3-fold/trimer interface [polypeptide binding]; other site 465515001800 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 465515001801 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 465515001802 putative active site [active] 465515001803 oxyanion strand; other site 465515001804 catalytic triad [active] 465515001805 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 465515001806 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 465515001807 catalytic residues [active] 465515001808 Transcriptional regulators [Transcription]; Region: MarR; COG1846 465515001809 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 465515001810 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 465515001811 CE1758 family; Region: LLM_CE1758_fam; TIGR04036 465515001812 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 465515001813 Scramblase; Region: Scramblase; cl02043 465515001814 Major Facilitator Superfamily; Region: MFS_1; pfam07690 465515001815 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 465515001816 type VII secretion protein EccCa; Region: T7SS_EccC_a; TIGR03924 465515001817 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 465515001818 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 465515001819 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial...; Region: VirB11-like_ATPase; cd01130 465515001820 ATP binding site [chemical binding]; other site 465515001821 Walker A motif; other site 465515001822 hexamer interface [polypeptide binding]; other site 465515001823 Walker B motif; other site 465515001824 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 465515001825 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 465515001826 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 465515001827 peptide chain release factor 2; Validated; Region: prfB; PRK00578 465515001828 RF-1 domain; Region: RF-1; cl02875 465515001829 RF-1 domain; Region: RF-1; cl02875 465515001830 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 465515001831 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 465515001832 putative NAD(P) binding site [chemical binding]; other site 465515001833 catalytic Zn binding site [ion binding]; other site 465515001834 putative acyltransferase; Provisional; Region: PRK05790 465515001835 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 465515001836 dimer interface [polypeptide binding]; other site 465515001837 active site 465515001838 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 465515001839 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 465515001840 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 465515001841 SmpB-tmRNA interface; other site 465515001842 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 465515001843 active site 465515001844 Predicted GTPases [General function prediction only]; Region: COG1162 465515001845 YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence...; Region: YjeQ_engC; cd01854 465515001846 GTPase/OB domain interface [polypeptide binding]; other site 465515001847 GTPase/Zn-binding domain interface [polypeptide binding]; other site 465515001848 GTP/Mg2+ binding site [chemical binding]; other site 465515001849 G4 box; other site 465515001850 G5 box; other site 465515001851 G1 box; other site 465515001852 Switch I region; other site 465515001853 G2 box; other site 465515001854 G3 box; other site 465515001855 Switch II region; other site 465515001856 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 465515001857 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats with a...; Region: EPT_RTPC-like; cl00288 465515001858 putative active site [active] 465515001859 RNA polymerase sigma-70 factor, TIGR02947 family; Region: SigH_actino 465515001860 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 465515001861 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...; Region: Sigma70_r4; cd06171 465515001862 DNA binding residues [nucleotide binding] 465515001863 mycothiol system anti-sigma-R factor; Region: antisig_RsrA; cl11829 465515001864 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 465515001865 active site 465515001866 catalytic triad [active] 465515001867 oxyanion hole [active] 465515001868 alpha-ketoglutarate decarboxylase; Reviewed; Region: kgd; PRK12270 465515001869 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 465515001870 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 2-oxoglutarate to succinyl-CoA and carbon dioxide, a key reaction of...; Region: TPP_E1_OGDC_like; cd02016 465515001871 TPP-binding site [chemical binding]; other site 465515001872 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 465515001873 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK07807 465515001874 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 465515001875 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-...; Region: CBS_pair; cd02205 465515001876 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...; Region: IMPDH; cd00381 465515001877 active site 465515001878 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 465515001879 Domain of unknown function DUF21; Region: DUF21; pfam01595 465515001880 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 465515001881 Transporter associated domain; Region: CorC_HlyC; cl08393 465515001882 Domain of unknown function DUF21; Region: DUF21; pfam01595 465515001883 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 465515001884 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 465515001885 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...; Region: TroA-like; cl00262 465515001886 intersubunit interface [polypeptide binding]; other site 465515001887 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...; Region: TM_ABC_iron-siderophores_like; cd06550 465515001888 ABC-ATPase subunit interface; other site 465515001889 dimer interface [polypeptide binding]; other site 465515001890 putative PBP binding regions; other site 465515001891 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 465515001892 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 iron-...; Region: ABC_Metallic_Cations; cd03235 465515001893 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 465515001894 metal binding site 2 [ion binding]; metal-binding site 465515001895 putative DNA binding helix; other site 465515001896 metal binding site 1 [ion binding]; metal-binding site 465515001897 dimer interface [polypeptide binding]; other site 465515001898 structural Zn2+ binding site [ion binding]; other site 465515001899 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 465515001900 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but...; Region: TST_Repeat_1; cd01448 465515001901 active site residue [active] 465515001902 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 465515001903 active site residue [active] 465515001904 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the...; Region: HIT_like; cl00228 465515001905 nucleotide binding site/active site [active] 465515001906 HIT family signature motif; other site 465515001907 catalytic residue [active] 465515001908 ATP-dependent RNA helicase HrpA; Provisional; Region: PRK11131 465515001909 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 465515001910 ATP binding site [chemical binding]; other site 465515001911 putative Mg++ binding site [ion binding]; other site 465515001912 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 465515001913 Helicase associated domain (HA2); Region: HA2; cl04503 465515001914 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 465515001915 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 465515001916 Sodium:solute symporter family; Region: SSF; cl00456 465515001917 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 465515001918 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 465515001919 NAD(P) binding site [chemical binding]; other site 465515001920 catalytic residues [active] 465515001921 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 465515001922 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 465515001923 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 465515001924 Walker A/P-loop; other site 465515001925 ATP binding site [chemical binding]; other site 465515001926 Q-loop/lid; other site 465515001927 ABC transporter signature motif; other site 465515001928 Walker B; other site 465515001929 D-loop; other site 465515001930 H-loop/switch region; other site 465515001931 ThiC family; Region: ThiC; cl08031 465515001932 Uncharacterized membrane protein [Function unknown]; Region: COG3949 465515001933 bifunctional hydroxy-methylpyrimidine kinase/ hydroxy-phosphomethylpyrimidine kinase; Reviewed; Region: PRK06427 465515001934 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 465515001935 dimer interface [polypeptide binding]; other site 465515001936 substrate binding site [chemical binding]; other site 465515001937 ATP binding site [chemical binding]; other site 465515001938 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- (beta-...; Region: TMP_TenI; cd00564 465515001939 active site 465515001940 thiamine phosphate binding site [chemical binding]; other site 465515001941 pyrophosphate binding site [ion binding]; other site 465515001942 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 465515001943 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 465515001944 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 465515001945 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 465515001946 thiS-thiF/thiG interaction site; other site 465515001947 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 465515001948 ThiS interaction site; other site 465515001949 putative active site [active] 465515001950 tetramer interface [polypeptide binding]; other site 465515001951 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 465515001952 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...; Region: ThiF_MoeB_HesA_family; cd00757 465515001953 ATP binding site [chemical binding]; other site 465515001954 substrate interface [chemical binding]; other site 465515001955 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 465515001956 active site residue [active] 465515001957 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 465515001958 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 465515001959 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 465515001960 active site 465515001961 HIGH motif; other site 465515001962 KMSK motif region; other site 465515001963 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 465515001964 tRNA binding surface [nucleotide binding]; other site 465515001965 anticodon binding site; other site 465515001966 diaminopimelate decarboxylase; Region: lysA; TIGR01048 465515001967 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 465515001968 active site 465515001969 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 465515001970 substrate binding site [chemical binding]; other site 465515001971 catalytic residues [active] 465515001972 dimer interface [polypeptide binding]; other site 465515001973 homoserine dehydrogenase; Provisional; Region: PRK06349 465515001974 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515001975 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 465515001976 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 465515001977 threonine synthase; Reviewed; Region: PRK06721 465515001978 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 465515001979 homodimer interface [polypeptide binding]; other site 465515001980 pyridoxal 5'-phosphate binding site [chemical binding]; other site 465515001981 catalytic residue [active] 465515001982 homoserine kinase; Provisional; Region: PRK01212 465515001983 homoserine kinase; Provisional; Region: PRK01212 465515001984 transcription termination factor Rho; Provisional; Region: PRK12608 465515001985 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 465515001986 RNA binding site [nucleotide binding]; other site 465515001987 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...; Region: rho_factor; cd01128 465515001988 multimer interface [polypeptide binding]; other site 465515001989 Walker A motif; other site 465515001990 ATP binding site [chemical binding]; other site 465515001991 Walker B motif; other site 465515001992 Protein chain release factor A [Translation, ribosomal structure and biogenesis]; Region: PrfA; COG0216 465515001993 RF-1 domain; Region: RF-1; cl02875 465515001994 RF-1 domain; Region: RF-1; cl02875 465515001995 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 465515001996 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 465515001997 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 465515001998 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 465515001999 Mg++ binding site [ion binding]; other site 465515002000 putative catalytic motif [active] 465515002001 substrate binding site [chemical binding]; other site 465515002002 ATP synthase A chain; Region: ATP-synt_A; cl00413 465515002003 ATP synthase subunit C; Region: ATP-synt_C; cl00466 465515002004 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 465515002005 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 465515002006 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 465515002007 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 465515002008 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 465515002009 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 465515002010 beta subunit interaction interface [polypeptide binding]; other site 465515002011 Walker A motif; other site 465515002012 ATP binding site [chemical binding]; other site 465515002013 Walker B motif; other site 465515002014 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 465515002015 ATP synthase; Region: ATP-synt; cl00365 465515002016 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 465515002017 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 465515002018 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 465515002019 alpha subunit interaction interface [polypeptide binding]; other site 465515002020 Walker A motif; other site 465515002021 ATP binding site [chemical binding]; other site 465515002022 Walker B motif; other site 465515002023 inhibitor binding site; inhibition site 465515002024 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 465515002025 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 465515002026 Protein of unknown function DUF91; Region: DUF91; cl00709 465515002027 Domain of unknown function DUF20; Region: UPF0118; cl00465 465515002028 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 465515002029 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 465515002030 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 465515002031 Walker A/P-loop; other site 465515002032 ATP binding site [chemical binding]; other site 465515002033 Q-loop/lid; other site 465515002034 ABC transporter signature motif; other site 465515002035 Walker B; other site 465515002036 D-loop; other site 465515002037 H-loop/switch region; other site 465515002038 Protein of unknown function (DUF3039); Region: DUF3039; pfam11238 465515002039 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 465515002040 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 465515002041 ATP binding site [chemical binding]; other site 465515002042 putative Mg++ binding site [ion binding]; other site 465515002043 mycothiol synthase; Region: mycothiol_MshD; TIGR03448 465515002044 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 465515002045 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; cl00220 465515002046 catalytic triad [active] 465515002047 conserved cis-peptide bond; other site 465515002048 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 465515002049 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...; Region: NAPRTase_A; cd01570 465515002050 active site 465515002051 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 465515002052 Domain of unknown function (DUF2017); Region: DUF2017; pfam09438 465515002053 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 465515002054 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 465515002055 ribonuclease PH; Reviewed; Region: rph; PRK00173 465515002056 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 465515002057 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 465515002058 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 Ham1-...; Region: HAM1; cd00515 465515002059 active site 465515002060 dimerization interface [polypeptide binding]; other site 465515002061 DNA polymerase III subunit epsilon; Validated; Region: PRK06195 465515002062 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 465515002063 active site 465515002064 substrate binding site [chemical binding]; other site 465515002065 catalytic site [active] 465515002066 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 465515002067 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 465515002068 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 465515002069 active site 465515002070 metal binding site [ion binding]; metal-binding site 465515002071 DNA binding site [nucleotide binding] 465515002072 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 465515002073 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 465515002074 Walker A/P-loop; other site 465515002075 ATP binding site [chemical binding]; other site 465515002076 Q-loop/lid; other site 465515002077 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 465515002078 ABC transporter signature motif; other site 465515002079 Walker B; other site 465515002080 D-loop; other site 465515002081 H-loop/switch region; other site 465515002082 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 465515002083 Protein export membrane protein; Region: SecD_SecF; cl14618 465515002084 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 465515002085 Predicted dehydrogenase [General function prediction only]; Region: COG0579 465515002086 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 465515002087 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 465515002088 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...; Region: PRX_BCP; cd03017 465515002089 catalytic triad [active] 465515002090 Dehydratase family; Region: ILVD_EDD; cl00340 465515002091 dihydroxy-acid dehydratase; Region: ilvD; TIGR00110 465515002092 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...; Region: metallo-dependent_hydrolases; cl00281 465515002093 active site 465515002094 acetolactate synthase 1 catalytic subunit; Validated; Region: PRK07789 465515002095 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 465515002096 PYR/PP interface [polypeptide binding]; other site 465515002097 dimer interface [polypeptide binding]; other site 465515002098 TPP binding site [chemical binding]; other site 465515002099 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 465515002100 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 465515002101 TPP-binding site [chemical binding]; other site 465515002102 dimer interface [polypeptide binding]; other site 465515002103 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 465515002104 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 465515002105 putative valine binding site [chemical binding]; other site 465515002106 dimer interface [polypeptide binding]; other site 465515002107 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 465515002108 ketol-acid reductoisomerase; Provisional; Region: PRK05479 465515002109 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515002110 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 465515002111 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 465515002112 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515002113 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-...; Region: CBS_pair; cl09141 465515002114 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 465515002115 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 465515002116 active site 465515002117 HIGH motif; other site 465515002118 KMSKS motif; other site 465515002119 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 465515002120 tRNA binding surface [nucleotide binding]; other site 465515002121 anticodon binding site; other site 465515002122 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 465515002123 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 465515002124 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 alpha-...; Region: BCAT_beta_family; cd01557 465515002125 homodimer interface [polypeptide binding]; other site 465515002126 substrate-cofactor binding pocket; other site 465515002127 catalytic residue [active] 465515002128 Carbon starvation protein CstA; Region: CstA; cl00856 465515002129 Protein of unknown function (DUF466); Region: DUF466; cl01082 465515002130 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 465515002131 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 465515002132 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 465515002133 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 465515002134 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 465515002135 active site 465515002136 HIGH motif; other site 465515002137 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 465515002138 active site 465515002139 KMSKS motif; other site 465515002140 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 465515002141 active site 465515002142 motif I; other site 465515002143 motif II; other site 465515002144 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 465515002145 Era (E. coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs)...; Region: Era_like; cd00880 465515002146 G1 box; other site 465515002147 GTP/Mg2+ binding site [chemical binding]; other site 465515002148 Switch I region; other site 465515002149 G2 box; other site 465515002150 Switch II region; other site 465515002151 G3 box; other site 465515002152 G4 box; other site 465515002153 G5 box; other site 465515002154 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal...; Region: PurM-like; cl10019 465515002155 dimerization interface [polypeptide binding]; other site 465515002156 ATP binding site [chemical binding]; other site 465515002157 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 465515002158 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 465515002159 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515002160 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 465515002161 Transcriptional regulator [Transcription]; Region: IclR; COG1414 465515002162 Bacterial transcriptional regulator; Region: IclR; pfam01614 465515002163 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 465515002164 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 465515002165 substrate binding site [chemical binding]; other site 465515002166 ligand binding site [chemical binding]; other site 465515002167 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 3-...; Region: IPMI_Swivel; cd01577 465515002168 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 465515002169 substrate binding site [chemical binding]; other site 465515002170 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Validated; Region: PRK09369 465515002171 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 465515002172 hinge; other site 465515002173 active site 465515002174 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 465515002175 putative acyl-acceptor binding pocket; other site 465515002176 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 465515002177 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515002178 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 465515002179 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 465515002180 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 465515002181 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 465515002182 Protein of unknown function (DUF3515); Region: DUF3515; pfam12028 465515002183 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 465515002184 DAK2 domain; Region: Dak2; cl03685 465515002185 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 465515002186 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 four-...; Region: RecG_wedge_OBF; cd04488 465515002187 ssDNA binding site; other site 465515002188 generic binding surface II; other site 465515002189 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 465515002190 ATP binding site [chemical binding]; other site 465515002191 putative Mg++ binding site [ion binding]; other site 465515002192 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 465515002193 S-adenosylmethionine binding site [chemical binding]; other site 465515002194 hypothetical protein; Provisional; Region: PRK08912 465515002195 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 465515002196 pyridoxal 5'-phosphate binding site [chemical binding]; other site 465515002197 homodimer interface [polypeptide binding]; other site 465515002198 catalytic residue [active] 465515002199 Nicotinic acid mononucleotide adenylyltransferase [Coenzyme metabolism]; Region: NadD; COG1057 465515002200 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 465515002201 active site 465515002202 (T/H)XGH motif; other site 465515002203 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 465515002204 active site 465515002205 tetramer interface [polypeptide binding]; other site 465515002206 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 465515002207 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 465515002208 ribonuclease III; Reviewed; Region: rnc; PRK00102 465515002209 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 post-...; Region: RIBOc; cd00593 465515002210 active site 465515002211 dimerization interface [polypeptide binding]; other site 465515002212 metal binding site [ion binding]; metal-binding site 465515002213 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...; Region: DSRM; cd00048 465515002214 dsRNA binding site [nucleotide binding]; other site 465515002215 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 465515002216 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 465515002217 DNA binding site [nucleotide binding] 465515002218 catalytic residue [active] 465515002219 H2TH interface [polypeptide binding]; other site 465515002220 putative catalytic residues [active] 465515002221 turnover-facilitating residue; other site 465515002222 intercalation triad [nucleotide binding]; other site 465515002223 8OG recognition residue [nucleotide binding]; other site 465515002224 putative reading head residues; other site 465515002225 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 465515002226 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 465515002227 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 465515002228 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 465515002229 PEP-CTERM/exosortase 1-associated glycosyltransferase, Daro_2409 family; Region: stp3; TIGR04063 465515002230 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 465515002231 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 465515002232 UDP-N-acetyl-D-mannosamine dehydrogenase; Provisional; Region: wecC; PRK11064 465515002233 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 465515002234 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 465515002235 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515002236 PEP-CTERM/exosortase 1-associated glycosyltransferase, Daro_2409 family; Region: stp3; TIGR04063 465515002237 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 465515002238 UDP-N-acetyl-D-mannosaminuronate dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: WecC; COG0677 465515002239 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 465515002240 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515002241 WcxM-like, Left-handed parallel beta-Helix (LbH) N-terminal domain: This group is composed of Xanthomonas campestris WcxM and proteins with similarity to the WcxM N-terminal domain. WcxM is thought to be bifunctional, catalyzing both the isomerization...; Region: LbH_WxcM_N_like; cd03358 465515002242 putative trimer interface [polypeptide binding]; other site 465515002243 putative active site [active] 465515002244 putative substrate binding site [chemical binding]; other site 465515002245 putative CoA binding site [chemical binding]; other site 465515002246 Acyl-[acyl carrier protein]; Region: LpxA; COG1043 465515002247 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 465515002248 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515002249 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 465515002250 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 465515002251 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 465515002252 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 465515002253 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 465515002254 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 465515002255 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...; Region: ABC_KpsT_Wzt; cd03220 465515002256 Walker A/P-loop; other site 465515002257 ATP binding site [chemical binding]; other site 465515002258 Q-loop/lid; other site 465515002259 ABC transporter signature motif; other site 465515002260 Walker B; other site 465515002261 D-loop; other site 465515002262 H-loop/switch region; other site 465515002263 ABC-2 type transporter; Region: ABC2_membrane; cl11417 465515002264 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 465515002265 UDP-N-acetylglucosamine 2-epimerase; Region: wecB; TIGR00236 465515002266 active site 465515002267 homodimer interface [polypeptide binding]; other site 465515002268 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 465515002269 putative substrate translocation pore; other site 465515002270 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 465515002271 Transposase; Region: DDE_Tnp_ISL3; pfam01610 465515002272 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 465515002273 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 465515002274 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 465515002275 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 465515002276 signal recognition particle protein; Provisional; Region: PRK10867 465515002277 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 465515002278 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 465515002279 P loop; other site 465515002280 GTP binding site [chemical binding]; other site 465515002281 Signal peptide binding domain; Region: SRP_SPB; pfam02978 465515002282 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 465515002283 Predicted RNA-binding protein (contains KH domain) [General function prediction only]; Region: COG1837; cl00794 465515002284 RimM protein, required for 16S rRNA processing [Translation, ribosomal structure and biogenesis]; Region: RimM; COG0806 465515002285 RimM N-terminal domain; Region: RimM; pfam01782 465515002286 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 465515002287 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 465515002288 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 465515002289 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 465515002290 Catalytic site [active] 465515002291 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 465515002292 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 465515002293 Catalytic site [active] 465515002294 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 465515002295 RNA/DNA hybrid binding site [nucleotide binding]; other site 465515002296 active site 465515002297 Protein of unknown function (DUF2469); Region: DUF2469; pfam10611 465515002298 Uncharacterised protein family UPF0102; Region: UPF0102; cl00516 465515002299 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 465515002300 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 465515002301 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 465515002302 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 465515002303 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 465515002304 DNA binding site [nucleotide binding] 465515002305 Int/Topo IB signature motif; other site 465515002306 active site 465515002307 Protein of unknown function (DUF3145); Region: DUF3145; pfam11343 465515002308 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 465515002309 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 465515002310 dimer interface [polypeptide binding]; other site 465515002311 active site 465515002312 Phosphopantetheine attachment site; Region: PP-binding; cl09936 465515002313 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 465515002314 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 465515002315 dimer interface [polypeptide binding]; other site 465515002316 active site 465515002317 CoA binding pocket [chemical binding]; other site 465515002318 Acyl transferase domain; Region: Acyl_transf_1; cl08282 465515002319 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 465515002320 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 465515002321 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 465515002322 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 465515002323 dimer interface [polypeptide binding]; other site 465515002324 TPP-binding site [chemical binding]; other site 465515002325 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 465515002326 Protein of unknown function (DUF3052); Region: DUF3052; pfam11253 465515002327 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 465515002328 AzlC protein; Region: AzlC; cl00570 465515002329 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 465515002330 Uncharacterized conserved protein [Function unknown]; Region: COG2326 465515002331 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 465515002332 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515002333 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 465515002334 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 465515002335 serine O-acetyltransferase; Region: cysE; TIGR01172 465515002336 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 L-...; Region: LbH_SAT; cd03354 465515002337 trimer interface [polypeptide binding]; other site 465515002338 active site 465515002339 substrate binding site [chemical binding]; other site 465515002340 CoA binding site [chemical binding]; other site 465515002341 cysteine synthases; Region: cysKM; TIGR01136 465515002342 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 465515002343 dimer interface [polypeptide binding]; other site 465515002344 pyridoxal 5'-phosphate binding site [chemical binding]; other site 465515002345 catalytic residue [active] 465515002346 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 465515002347 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl00412 465515002348 Putative zinc ribbon domain; Region: DUF164; pfam02591 465515002349 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 465515002350 RNA/DNA hybrid binding site [nucleotide binding]; other site 465515002351 active site 465515002352 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_6; cd07242 465515002353 putative dimer interface [polypeptide binding]; other site 465515002354 ligand binding site [chemical binding]; other site 465515002355 Zn binding site [ion binding]; other site 465515002356 Protein of unknown function (DUF328); Region: DUF328; cl01143 465515002357 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 465515002358 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 465515002359 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 465515002360 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 465515002361 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 465515002362 inhibitor site; inhibition site 465515002363 active site 465515002364 dimer interface [polypeptide binding]; other site 465515002365 catalytic residue [active] 465515002366 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(...; Region: Pep_deformylase; cd00487 465515002367 active site 465515002368 catalytic residues [active] 465515002369 metal binding site [ion binding]; metal-binding site 465515002370 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 465515002371 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 465515002372 ligand binding site [chemical binding]; other site 465515002373 flexible hinge region; other site 465515002374 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 465515002375 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 465515002376 metal-binding site [ion binding] 465515002377 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 465515002378 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 465515002379 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; cl11391 465515002380 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 465515002381 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; cl15259 465515002382 Site-specific recombinase XerD [DNA replication, recombination, and repair]; Region: XerD; COG4974 465515002383 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 465515002384 Int/Topo IB signature motif; other site 465515002385 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 465515002386 putative active site [active] 465515002387 putative substrate binding site [chemical binding]; other site 465515002388 catalytic site [active] 465515002389 dimer interface [polypeptide binding]; other site 465515002390 carotene biosynthesis associated membrane protein; Region: crt_membr; TIGR03459 465515002391 carotene biosynthesis associated membrane protein; Region: crt_membr; TIGR03459 465515002392 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 465515002393 Predicted membrane protein (DUF2079); Region: DUF2079; cl01374 465515002394 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 465515002395 dimer interface [polypeptide binding]; other site 465515002396 ssDNA binding site [nucleotide binding]; other site 465515002397 tetramer (dimer of dimers) interface [polypeptide binding]; other site 465515002398 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 465515002399 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 465515002400 Walker A/P-loop; other site 465515002401 ATP binding site [chemical binding]; other site 465515002402 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 465515002403 Q-loop/lid; other site 465515002404 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...; Region: ABCF_EF-3; cd03221 465515002405 ABC transporter; Region: ABC_tran_2; pfam12848 465515002406 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...; Region: ABCF_EF-3; cd03221 465515002407 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 465515002408 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 465515002409 active site 465515002410 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 465515002411 catalytic triad [active] 465515002412 dimer interface [polypeptide binding]; other site 465515002413 OsmC-like protein; Region: OsmC; cl00767 465515002414 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...; Region: Trunc_globin; cd00454 465515002415 apolar tunnel; other site 465515002416 heme binding site [chemical binding]; other site 465515002417 dimerization interface [polypeptide binding]; other site 465515002418 aminopeptidase N, Streptomyces lividans type; Region: pepN_strep_liv; TIGR02412 465515002419 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_3; cd09602 465515002420 Zn binding site [ion binding]; other site 465515002421 Domain of unknown function (DUF3358); Region: DUF3358; pfam11838 465515002422 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 465515002423 N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases; Region: FpgNei_N; cl03119 465515002424 DNA binding site [nucleotide binding] 465515002425 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 465515002426 Protein of unknown function (DUF1345); Region: DUF1345; cl01753 465515002427 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515002428 active site 465515002429 trigger factor; Provisional; Region: tig; PRK01490 465515002430 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 465515002431 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 465515002432 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 465515002433 oligomer interface [polypeptide binding]; other site 465515002434 active site residues [active] 465515002435 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 465515002436 oligomer interface [polypeptide binding]; other site 465515002437 active site residues [active] 465515002438 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 465515002439 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 465515002440 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 465515002441 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...; Region: AAA; cd00009 465515002442 Walker A motif; other site 465515002443 ATP binding site [chemical binding]; other site 465515002444 Walker B motif; other site 465515002445 arginine finger; other site 465515002446 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 465515002447 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 465515002448 valyl-tRNA synthetase; Reviewed; Region: valS; PRK13208 465515002449 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 465515002450 active site 465515002451 HIGH motif; other site 465515002452 nucleotide binding site [chemical binding]; other site 465515002453 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 465515002454 active site 465515002455 KMSKS motif; other site 465515002456 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 465515002457 tRNA binding surface [nucleotide binding]; other site 465515002458 anticodon binding site; other site 465515002459 short chain dehydrogenase; Provisional; Region: PRK08219 465515002460 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515002461 NAD(P) binding site [chemical binding]; other site 465515002462 active site 465515002463 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 465515002464 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 465515002465 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 465515002466 Active Sites [active] 465515002467 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 465515002468 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 465515002469 Active Sites [active] 465515002470 sulfate adenylyltransferase, large subunit; Region: CysN; TIGR02034 465515002471 CysN_ATPS subfamily. CysN, together with protein CysD, form the ATP sulfurylase (ATPS) complex in some bacteria and lower eukaryotes. ATPS catalyzes the production of ATP sulfurylase (APS) and pyrophosphate (PPi) from ATP and sulfate. CysD, which...; Region: CysN_ATPS; cd04166 465515002472 CysD dimerization site [polypeptide binding]; other site 465515002473 G1 box; other site 465515002474 putative GEF interaction site [polypeptide binding]; other site 465515002475 GTP/Mg2+ binding site [chemical binding]; other site 465515002476 Switch I region; other site 465515002477 G2 box; other site 465515002478 G3 box; other site 465515002479 Switch II region; other site 465515002480 G4 box; other site 465515002481 G5 box; other site 465515002482 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of...; Region: CysN_NodQ_II; cd03695 465515002483 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of...; Region: CysN_NoDQ_III; cd04095 465515002484 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 465515002485 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 465515002486 Walker A/P-loop; other site 465515002487 ATP binding site [chemical binding]; other site 465515002488 Q-loop/lid; other site 465515002489 ABC transporter signature motif; other site 465515002490 Walker B; other site 465515002491 D-loop; other site 465515002492 H-loop/switch region; other site 465515002493 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...; Region: TM_PBP2; cd06261 465515002494 dimer interface [polypeptide binding]; other site 465515002495 conserved gate region; other site 465515002496 putative PBP binding loops; other site 465515002497 ABC-ATPase subunit interface; other site 465515002498 siroheme synthase; Provisional; Region: cysG; PRK10637 465515002499 precorrin-2 dehydrogenase; Validated; Region: PRK06719 465515002500 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 465515002501 ferredoxin-NADP+ reductase; Region: PLN02852 465515002502 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515002503 TIGR03085 family protein; Region: TIGR03085 465515002504 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 465515002505 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 465515002506 HIGH motif; other site 465515002507 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 465515002508 active site 465515002509 KMSKS motif; other site 465515002510 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 465515002511 tRNA binding surface [nucleotide binding]; other site 465515002512 anticodon binding site; other site 465515002513 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 465515002514 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 465515002515 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 465515002516 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 465515002517 active site 465515002518 multimer interface [polypeptide binding]; other site 465515002519 Vitamin K epoxide reductase family; Region: VKOR; cl01729 465515002520 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 465515002521 S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and...; Region: S1_RNase_E; cd04453 465515002522 homodimer interface [polypeptide binding]; other site 465515002523 oligonucleotide binding site [chemical binding]; other site 465515002524 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 465515002525 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 465515002526 GTPase CgtA; Reviewed; Region: obgE; PRK12296 465515002527 GTP1/OBG; Region: GTP1_OBG; pfam01018 465515002528 Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins...; Region: Obg; cd01898 465515002529 G1 box; other site 465515002530 GTP/Mg2+ binding site [chemical binding]; other site 465515002531 Switch I region; other site 465515002532 G2 box; other site 465515002533 G3 box; other site 465515002534 Switch II region; other site 465515002535 G4 box; other site 465515002536 G5 box; other site 465515002537 Domain of unknown function (DUF1967); Region: DUF1967; cl07779 465515002538 gamma-glutamyl kinase; Provisional; Region: PRK05429 465515002539 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 465515002540 nucleotide binding site [chemical binding]; other site 465515002541 homotetrameric interface [polypeptide binding]; other site 465515002542 putative phosphate binding site [ion binding]; other site 465515002543 putative allosteric binding site; other site 465515002544 PUA domain; Region: PUA; cl00607 465515002545 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 465515002546 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 465515002547 putative catalytic cysteine [active] 465515002548 Nicotinic acid mononucleotide adenylyltransferase [Coenzyme metabolism]; Region: NadD; COG1057 465515002549 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 465515002550 active site 465515002551 (T/H)XGH motif; other site 465515002552 Domain of unknown function DUF143; Region: DUF143; cl00519 465515002553 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 465515002554 Histidine phosphatase superfamily (branch 1); Region: His_Phos_1; pfam00300 465515002555 catalytic core [active] 465515002556 Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]; Region: RuvB; COG2255 465515002557 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...; Region: AAA; cd00009 465515002558 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 465515002559 Walker A motif; other site 465515002560 ATP binding site [chemical binding]; other site 465515002561 Walker B motif; other site 465515002562 arginine finger; other site 465515002563 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 465515002564 Transposase; Region: DDE_Tnp_ISL3; pfam01610 465515002565 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; cl01116 465515002566 Transposase, Mutator family; Region: Transposase_mut; pfam00872 465515002567 MULE transposase domain; Region: MULE; pfam10551 465515002568 Integrase core domain; Region: rve; cl01316 465515002569 putative oxidoreductase; Provisional; Region: PRK10206 465515002570 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515002571 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 465515002572 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 465515002573 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515002574 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 465515002575 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 465515002576 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 465515002577 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 465515002578 NAD(P) binding site [chemical binding]; other site 465515002579 catalytic residues [active] 465515002580 4-aminobutyrate aminotransferase; Provisional; Region: PRK06058 465515002581 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 465515002582 inhibitor-cofactor binding pocket; inhibition site 465515002583 pyridoxal 5'-phosphate binding site [chemical binding]; other site 465515002584 catalytic residue [active] 465515002585 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 465515002586 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 465515002587 dimerization interface [polypeptide binding]; other site 465515002588 Sortase E (SrtE) is a membrane transpeptidase found in gram-positive bacteria that cleaves surface proteins at a cell sorting motif and catalyzes a transpeptidation reaction in which the surface protein substrate is covalently linked to peptidoglycan...; Region: Sortase_E; cd05829 465515002589 active site 465515002590 putative catalytic site [active] 465515002591 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3544 465515002592 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 465515002593 Transposase, Mutator family; Region: Transposase_mut; pfam00872 465515002594 MULE transposase domain; Region: MULE; pfam10551 465515002595 Transposase, Mutator family; Region: Transposase_mut; pfam00872 465515002596 MULE transposase domain; Region: MULE; pfam10551 465515002597 Domain of unknown function (DUF1931); Region: DUF1931; pfam09123 465515002598 Transposase, Mutator family; Region: Transposase_mut; pfam00872 465515002599 MULE transposase domain; Region: MULE; pfam10551 465515002600 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...; Region: NrdH; cd02976 465515002601 catalytic residues [active] 465515002602 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 465515002603 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 465515002604 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 465515002605 Class I ribonucleotide reductase; Region: RNR_I; cd01679 465515002606 active site 465515002607 dimer interface [polypeptide binding]; other site 465515002608 catalytic residues [active] 465515002609 effector binding site; other site 465515002610 R2 peptide binding site; other site 465515002611 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 465515002612 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 465515002613 dimer interface [polypeptide binding]; other site 465515002614 putative radical transfer pathway; other site 465515002615 diiron center [ion binding]; other site 465515002616 tyrosyl radical; other site 465515002617 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 465515002618 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; Region: ABC_MetN_methionine_transporter; cd03258 465515002619 Walker A/P-loop; other site 465515002620 ATP binding site [chemical binding]; other site 465515002621 Q-loop/lid; other site 465515002622 ABC transporter signature motif; other site 465515002623 Walker B; other site 465515002624 D-loop; other site 465515002625 H-loop/switch region; other site 465515002626 NIL domain; Region: NIL; cl09633 465515002627 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...; Region: TM_PBP2; cd06261 465515002628 dimer interface [polypeptide binding]; other site 465515002629 conserved gate region; other site 465515002630 ABC-ATPase subunit interface; other site 465515002631 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 465515002632 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 465515002633 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 465515002634 Active site [active] 465515002635 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 465515002636 mycothiol-dependent formaldehyde dehydrogenase; Region: mycoS_dep_FDH; TIGR03451 465515002637 Class III alcohol dehydrogenase; Region: Zn_ADH_class_III; cd08279 465515002638 NAD binding site [chemical binding]; other site 465515002639 catalytic Zn binding site [ion binding]; other site 465515002640 substrate binding site [chemical binding]; other site 465515002641 structural Zn binding site [ion binding]; other site 465515002642 Uncharacterised ACR, COG2135; Region: DUF159; cl03646 465515002643 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cl14635 465515002644 DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]; Region: DnaE; COG0587 465515002645 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 465515002646 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...; Region: DnaE_OBF; cd04485 465515002647 generic binding surface II; other site 465515002648 generic binding surface I; other site 465515002649 GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information on the function of the TGS domain, but...; Region: TGS; cl03735 465515002650 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 465515002651 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 465515002652 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 465515002653 active site 465515002654 dimer interface [polypeptide binding]; other site 465515002655 motif 1; other site 465515002656 motif 2; other site 465515002657 motif 3; other site 465515002658 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 465515002659 anticodon binding site; other site 465515002660 FHIT (fragile histidine family): FHIT proteins, related to the HIT family carry a motif HxHxH/Qxx (x, is a hydrophobic amino acid), On the basis of sequence, substrate specificity, structure, evolution and mechanism, HIT proteins are classified into...; Region: FHIT; cd01275 465515002661 nucleotide binding site/active site [active] 465515002662 HIT family signature motif; other site 465515002663 catalytic residue [active] 465515002664 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 465515002665 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 465515002666 putative deacylase active site [active] 465515002667 Fe-S metabolism associated domain; Region: SufE; cl00951 465515002668 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 465515002669 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but...; Region: TST_Repeat_1; cd01448 465515002670 active site residue [active] 465515002671 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 465515002672 active site residue [active] 465515002673 AFG1-like ATPase; Region: AFG1_ATPase; pfam03969 465515002674 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 465515002675 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(...; Region: Pep_deformylase; cd00487 465515002676 active site 465515002677 catalytic residues [active] 465515002678 metal binding site [ion binding]; metal-binding site 465515002679 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 465515002680 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 465515002681 putative active site [active] 465515002682 substrate binding site [chemical binding]; other site 465515002683 putative cosubstrate binding site; other site 465515002684 catalytic site [active] 465515002685 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 465515002686 substrate binding site [chemical binding]; other site 465515002687 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 rRNA-...; Region: NusB_Sun; cl00223 465515002688 putative RNA binding site [nucleotide binding]; other site 465515002689 16S rRNA methyltransferase B; Provisional; Region: PRK14902 465515002690 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 465515002691 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...; Region: RPE; cd00429 465515002692 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 465515002693 substrate binding site [chemical binding]; other site 465515002694 hexamer interface [polypeptide binding]; other site 465515002695 metal binding site [ion binding]; metal-binding site 465515002696 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 465515002697 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 465515002698 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 465515002699 catalytic motif [active] 465515002700 Zn binding site [ion binding]; other site 465515002701 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 5,10-...; Region: DHFR; cl00161 465515002702 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 465515002703 Lumazine binding domain; Region: Lum_binding; pfam00677 465515002704 Lumazine binding domain; Region: Lum_binding; pfam00677 465515002705 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 465515002706 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 465515002707 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 465515002708 dimerization interface [polypeptide binding]; other site 465515002709 active site 465515002710 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 465515002711 homopentamer interface [polypeptide binding]; other site 465515002712 active site 465515002713 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 465515002714 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 465515002715 ATP phosphoribosyltransferase; Region: HisG; cl15266 465515002716 HisG, C-terminal domain; Region: HisG_C; cl06867 465515002717 Imidazoleglycerol-phosphate synthase [Amino acid transport and metabolism]; Region: HisF; COG0107 465515002718 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)-formimino-5-; Region: HisF; cd04731 465515002719 substrate binding site [chemical binding]; other site 465515002720 glutamase interaction surface [polypeptide binding]; other site 465515002721 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 465515002722 anthranilate synthase component I; Provisional; Region: PRK13571 465515002723 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 465515002724 chorismate binding enzyme; Region: Chorismate_bind; cl10555 465515002725 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 465515002726 active site 465515002727 ribulose/triose binding site [chemical binding]; other site 465515002728 phosphate binding site [ion binding]; other site 465515002729 substrate (anthranilate) binding pocket [chemical binding]; other site 465515002730 product (indole) binding pocket [chemical binding]; other site 465515002731 tryptophan synthase, beta chain; Region: PLN02618 465515002732 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 465515002733 pyridoxal 5'-phosphate binding site [chemical binding]; other site 465515002734 catalytic residue [active] 465515002735 tryptophan synthase; Region: PLN02591 465515002736 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...; Region: Tryptophan_synthase_alpha; cd04724 465515002737 substrate binding site [chemical binding]; other site 465515002738 active site 465515002739 catalytic residues [active] 465515002740 heterodimer interface [polypeptide binding]; other site 465515002741 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 465515002742 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 465515002743 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 N-...; Region: GltS; cd00713 465515002744 active site 465515002745 dimer interface [polypeptide binding]; other site 465515002746 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 465515002747 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...; Region: GltS_FMN; cd02808 465515002748 active site 465515002749 FMN binding site [chemical binding]; other site 465515002750 substrate binding site [chemical binding]; other site 465515002751 3Fe-4S cluster binding site [ion binding]; other site 465515002752 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 465515002753 domain interface; other site 465515002754 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 465515002755 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515002756 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 465515002757 pyruvate kinase; Provisional; Region: PRK06247 465515002758 domain interfaces; other site 465515002759 active site 465515002760 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 465515002761 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 465515002762 active site 465515002763 phosphorylation site [posttranslational modification] 465515002764 intermolecular recognition site; other site 465515002765 dimerization interface [polypeptide binding]; other site 465515002766 ANTAR domain; Region: ANTAR; cl04297 465515002767 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12650 465515002768 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 465515002769 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 465515002770 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 465515002771 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 465515002772 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 465515002773 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 465515002774 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 465515002775 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 465515002776 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 465515002777 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 465515002778 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 465515002779 CoenzymeA binding site [chemical binding]; other site 465515002780 subunit interaction site [polypeptide binding]; other site 465515002781 PHB binding site; other site 465515002782 DNA polymerase I; Provisional; Region: PRK05755 465515002783 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 465515002784 active site 465515002785 metal binding site 1 [ion binding]; metal-binding site 465515002786 putative 5' ssDNA interaction site; other site 465515002787 metal binding site 3; metal-binding site 465515002788 metal binding site 2 [ion binding]; metal-binding site 465515002789 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 465515002790 putative DNA binding site [nucleotide binding]; other site 465515002791 putative metal binding site [ion binding]; other site 465515002792 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 465515002793 active site 465515002794 substrate binding site [chemical binding]; other site 465515002795 catalytic site [active] 465515002796 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 465515002797 active site 465515002798 DNA binding site [nucleotide binding] 465515002799 catalytic site [active] 465515002800 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 465515002801 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK07899 465515002802 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 465515002803 RNA binding site [nucleotide binding]; other site 465515002804 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 465515002805 RNA binding site [nucleotide binding]; other site 465515002806 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 465515002807 RNA binding site [nucleotide binding]; other site 465515002808 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 465515002809 RNA binding site [nucleotide binding]; other site 465515002810 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 465515002811 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 465515002812 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 465515002813 BCCT family transporter; Region: BCCT; cl00569 465515002814 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 465515002815 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 465515002816 CoA-binding site [chemical binding]; other site 465515002817 ATP-binding [chemical binding]; other site 465515002818 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 465515002819 CoA-binding site [chemical binding]; other site 465515002820 ATP-binding [chemical binding]; other site 465515002821 excinuclease ABC subunit B; Provisional; Region: PRK05298 465515002822 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 465515002823 nucleotide binding region [chemical binding]; other site 465515002824 ATP-binding site [chemical binding]; other site 465515002825 Ultra-violet resistance protein B; Region: UvrB; pfam12344 465515002826 UvrB/uvrC motif; Region: UVR; pfam02151 465515002827 Integral membrane protein TerC family; Region: TerC; cl10468 465515002828 Integral membrane protein TerC family; Region: TerC; cl10468 465515002829 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 465515002830 DEAD-like helicases superfamily; Region: DEXDc; smart00487 465515002831 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 465515002832 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 465515002833 ATP binding site [chemical binding]; other site 465515002834 putative Mg++ binding site [ion binding]; other site 465515002835 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 465515002836 Domain of unknown function (DUF3516); Region: DUF3516; pfam12029 465515002837 Trans-aconitate methyltransferase [General function prediction only]; Region: Tam; COG4106 465515002838 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 465515002839 S-adenosylmethionine binding site [chemical binding]; other site 465515002840 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 465515002841 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 465515002842 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 465515002843 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 465515002844 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 465515002845 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 465515002846 putative acyl-acceptor binding pocket; other site 465515002847 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 465515002848 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 465515002849 GIY-YIG motif/motif A; other site 465515002850 active site 465515002851 catalytic site [active] 465515002852 putative DNA binding site [nucleotide binding]; other site 465515002853 metal binding site [ion binding]; metal-binding site 465515002854 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 465515002855 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 465515002856 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 465515002857 putative substrate binding pocket [chemical binding]; other site 465515002858 dimer interface [polypeptide binding]; other site 465515002859 phosphate binding site [ion binding]; other site 465515002860 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 465515002861 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 465515002862 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 465515002863 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 465515002864 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 465515002865 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 465515002866 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 465515002867 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 465515002868 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cl00198 465515002869 substrate binding site [chemical binding]; other site 465515002870 hinge regions; other site 465515002871 ADP binding site [chemical binding]; other site 465515002872 catalytic site [active] 465515002873 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 465515002874 substrate binding site [chemical binding]; other site 465515002875 dimer interface [polypeptide binding]; other site 465515002876 catalytic triad [active] 465515002877 opcA protein; Region: OpcA; TIGR00534 465515002878 Glucose-6-phosphate dehydrogenase subunit; Region: OpcA_G6PD_assem; cl01359 465515002879 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 465515002880 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 465515002881 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 465515002882 bifunctional transaldolase/phosoglucose isomerase; Validated; Region: PRK09533 465515002883 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 465515002884 active site 465515002885 dimer interface [polypeptide binding]; other site 465515002886 SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars; Region: SIS; cl00389 465515002887 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 465515002888 putative active site [active] 465515002889 transaldolase; Provisional; Region: PRK03903 465515002890 catalytic residue [active] 465515002891 transketolase; Reviewed; Region: PRK05899 465515002892 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 465515002893 TPP-binding site [chemical binding]; other site 465515002894 dimer interface [polypeptide binding]; other site 465515002895 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 465515002896 PYR/PP interface [polypeptide binding]; other site 465515002897 dimer interface [polypeptide binding]; other site 465515002898 TPP binding site [chemical binding]; other site 465515002899 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 465515002900 UbiA prenyltransferase family; Region: UbiA; cl00337 465515002901 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 465515002902 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 465515002903 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 465515002904 Walker A/P-loop; other site 465515002905 ATP binding site [chemical binding]; other site 465515002906 Q-loop/lid; other site 465515002907 ABC transporter signature motif; other site 465515002908 Walker B; other site 465515002909 D-loop; other site 465515002910 H-loop/switch region; other site 465515002911 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 465515002912 Predicted transcriptional regulator [Transcription]; Region: COG2345 465515002913 FeS assembly protein SufB; Region: sufB; TIGR01980 465515002914 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 465515002915 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 465515002916 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814; cl03223 465515002917 FeS assembly ATPase SufC; Region: sufC; TIGR01978 465515002918 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 465515002919 Walker A/P-loop; other site 465515002920 ATP binding site [chemical binding]; other site 465515002921 Q-loop/lid; other site 465515002922 ABC transporter signature motif; other site 465515002923 Walker B; other site 465515002924 D-loop; other site 465515002925 H-loop/switch region; other site 465515002926 Domain of unknown function DUF59; Region: DUF59; cl00941 465515002927 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; cl00988 465515002928 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 465515002929 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 465515002930 Walker A/P-loop; other site 465515002931 ATP binding site [chemical binding]; other site 465515002932 Q-loop/lid; other site 465515002933 ABC transporter signature motif; other site 465515002934 Walker B; other site 465515002935 D-loop; other site 465515002936 H-loop/switch region; other site 465515002937 ABC transporter; Region: ABC_tran_2; pfam12848 465515002938 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...; Region: ABCF_EF-3; cd03221 465515002939 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 465515002940 Protein of unknown function (DUF3099); Region: DUF3099; pfam11298 465515002941 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515002942 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 465515002943 NAD(P) binding site [chemical binding]; other site 465515002944 active site 465515002945 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515002946 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515002947 NAD(P) binding site [chemical binding]; other site 465515002948 active site 465515002949 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 465515002950 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; cl11391 465515002951 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 465515002952 motif II; other site 465515002953 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 465515002954 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...; Region: ABC_cobalt_CbiO_domain1; cd03225 465515002955 Walker A/P-loop; other site 465515002956 ATP binding site [chemical binding]; other site 465515002957 Q-loop/lid; other site 465515002958 ABC transporter signature motif; other site 465515002959 Walker B; other site 465515002960 D-loop; other site 465515002961 H-loop/switch region; other site 465515002962 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 465515002963 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 465515002964 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 465515002965 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 465515002966 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 465515002967 Lipoate-protein ligase A [Coenzyme metabolism]; Region: LplA; COG0095 465515002968 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 465515002969 aminopeptidase N, Streptomyces lividans type; Region: pepN_strep_liv; TIGR02412 465515002970 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_3; cd09602 465515002971 Zn binding site [ion binding]; other site 465515002972 Domain of unknown function (DUF3358); Region: DUF3358; pfam11838 465515002973 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00844 465515002974 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 465515002975 ligand binding site [chemical binding]; other site 465515002976 oligomer interface [polypeptide binding]; other site 465515002977 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and rate-...; Region: LbH_G1P_AT_C; cd04651 465515002978 dimer interface [polypeptide binding]; other site 465515002979 N-terminal domain interface [polypeptide binding]; other site 465515002980 sulfate 1 binding site; other site 465515002981 glycogen synthase, Corynebacterium family; Region: glgA_Coryne; TIGR02149 465515002982 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 465515002983 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 465515002984 active site 465515002985 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 465515002986 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 465515002987 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 465515002988 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 465515002989 dimer interface [polypeptide binding]; other site 465515002990 active site 465515002991 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08261 465515002992 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515002993 NAD(P) binding site [chemical binding]; other site 465515002994 active site 465515002995 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 465515002996 active site 2 [active] 465515002997 active site 1 [active] 465515002998 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 465515002999 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 465515003000 UDP-N-acetylglucosamine: 1L-myo-inositol-1-phosphate 1-alpha-D-N-acetylglucosaminyltransferase; Region: mycothiol_MshA; TIGR03449 465515003001 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 465515003002 putative ADP-binding pocket [chemical binding]; other site 465515003003 hypothetical protein; Provisional; Region: PRK07906 465515003004 M20 Peptidase, carboxypeptidase yscS-like; Region: M20_yscS_like; cd05675 465515003005 putative metal binding site [ion binding]; other site 465515003006 Bacitracin resistance protein BacA; Region: BacA; cl00858 465515003007 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 465515003008 cysteinyl-tRNA synthetase; Provisional; Region: PRK12418 465515003009 active site 465515003010 HIGH motif; other site 465515003011 nucleotide binding site [chemical binding]; other site 465515003012 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 465515003013 active site 465515003014 KMSKS motif; other site 465515003015 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 465515003016 tRNA binding surface [nucleotide binding]; other site 465515003017 anticodon binding site; other site 465515003018 PAC2 family; Region: PAC2; cl00847 465515003019 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; cl11391 465515003020 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 465515003021 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 465515003022 active site 465515003023 putative substrate binding region [chemical binding]; other site 465515003024 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]; Region: GCD14; COG2519 465515003025 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 465515003026 proteasome ATPase; Region: pup_AAA; TIGR03689 465515003027 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...; Region: AAA; cd00009 465515003028 Walker A motif; other site 465515003029 ATP binding site [chemical binding]; other site 465515003030 Walker B motif; other site 465515003031 arginine finger; other site 465515003032 proteasome accessory factor PafA2; Region: pupylate_PafA2; TIGR03688 465515003033 Pup-ligase protein; Region: Pup_ligase; pfam03136 465515003034 Formiminotransferase-cyclodeaminase; Region: FTCD_C; cl01350 465515003035 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 465515003036 Transposase; Region: DDE_Tnp_ISL3; pfam01610 465515003037 Pup-like protein; Region: Pup; cl05289 465515003038 proteasome accessory factor PafA; Region: pupylate_PafA; TIGR03686 465515003039 proteasome accessory factor PafA2; Region: pupylate_PafA2; TIGR03688 465515003040 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 465515003041 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 465515003042 Predicted transcriptional regulator [Transcription]; Region: COG2378 465515003043 Predicted transcriptional regulator [Transcription]; Region: COG2378 465515003044 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 465515003045 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 465515003046 Superfamily II RNA helicase [DNA replication, recombination, and repair]; Region: COG4581 465515003047 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 465515003048 ATP binding site [chemical binding]; other site 465515003049 putative Mg++ binding site [ion binding]; other site 465515003050 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 465515003051 nucleotide binding region [chemical binding]; other site 465515003052 ATP-binding site [chemical binding]; other site 465515003053 DSHCT (NUC185) domain; Region: DSHCT; pfam08148 465515003054 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...; Region: metallo-dependent_hydrolases; cl00281 465515003055 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 465515003056 Ligand binding site [chemical binding]; other site 465515003057 Putative Catalytic site [active] 465515003058 DXD motif; other site 465515003059 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 465515003060 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 465515003061 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 465515003062 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 465515003063 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 465515003064 phosphate binding site [ion binding]; other site 465515003065 dihydropyrimidine dehydrogenase subunit A; Provisional; Region: PRK11749 465515003066 glycogen branching enzyme; Provisional; Region: PRK14705 465515003067 Transposase, Mutator family; Region: Transposase_mut; pfam00872 465515003068 MULE transposase domain; Region: MULE; pfam10551 465515003069 Protein of unknown function (DUF3054); Region: DUF3054; pfam11255 465515003070 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 465515003071 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 465515003072 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 465515003073 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 465515003074 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cd00386 465515003075 Subunit I/III interface [polypeptide binding]; other site 465515003076 Cytochrome c; Region: Cytochrom_C; cl11414 465515003077 Cytochrome c; Region: Cytochrom_C; cl11414 465515003078 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1)...; Region: Rieske; cd03467 465515003079 iron-sulfur cluster [ion binding]; other site 465515003080 [2Fe-2S] cluster binding site [ion binding]; other site 465515003081 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria...; Region: Cytochrome_b_N; cl00859 465515003082 heme bH binding site [chemical binding]; other site 465515003083 Qi binding site; other site 465515003084 intrachain domain interface; other site 465515003085 heme bL binding site [chemical binding]; other site 465515003086 interchain domain interface [polypeptide binding]; other site 465515003087 Qo binding site; other site 465515003088 Transposase; Region: DEDD_Tnp_IS110; pfam01548 465515003089 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 465515003090 Transposase, Mutator family; Region: Transposase_mut; pfam00872 465515003091 MULE transposase domain; Region: MULE; pfam10551 465515003092 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 465515003093 Integrase core domain; Region: rve; cl01316 465515003094 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 465515003095 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...; Region: AAA; cd00009 465515003096 Walker A motif; other site 465515003097 ATP binding site [chemical binding]; other site 465515003098 Walker B motif; other site 465515003099 Cytochrome c oxidase subunit IV; Region: Cyt_c_ox_IV; pfam12270 465515003100 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 465515003101 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 465515003102 D-pathway; other site 465515003103 Putative ubiquinol binding site [chemical binding]; other site 465515003104 Low-spin heme (heme b) binding site [chemical binding]; other site 465515003105 Putative water exit pathway; other site 465515003106 Binuclear center (heme o3/CuB) [ion binding]; other site 465515003107 K-pathway; other site 465515003108 Putative proton exit pathway; other site 465515003109 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 465515003110 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 465515003111 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 465515003112 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 465515003113 M20 Dipeptidases; Region: M20_Dipept_like; cd03893 465515003114 active site 465515003115 metal binding site [ion binding]; metal-binding site 465515003116 dimer interface [polypeptide binding]; other site 465515003117 Protein of unknown function (DUF3043); Region: DUF3043; pfam11241 465515003118 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...; Region: DHOD_2_like; cd04738 465515003119 quinone interaction residues [chemical binding]; other site 465515003120 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 465515003121 active site 465515003122 catalytic residues [active] 465515003123 FMN binding site [chemical binding]; other site 465515003124 substrate binding site [chemical binding]; other site 465515003125 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 465515003126 Undecaprenyl pyrophosphate synthase [Lipid metabolism]; Region: UppS; COG0020 465515003127 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 465515003128 catalytic residue [active] 465515003129 putative FPP diphosphate binding site; other site 465515003130 putative FPP binding hydrophobic cleft; other site 465515003131 dimer interface [polypeptide binding]; other site 465515003132 putative IPP diphosphate binding site; other site 465515003133 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 465515003134 Recombination protein O N terminal; Region: RecO_N; pfam11967 465515003135 Recombination protein O C terminal; Region: RecO_C; pfam02565 465515003136 2-isopropylmalate synthase; Validated; Region: PRK03739 465515003137 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 465515003138 active site 465515003139 catalytic residues [active] 465515003140 metal binding site [ion binding]; metal-binding site 465515003141 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 465515003142 GTPase Era; Reviewed; Region: era; PRK00089 465515003143 Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit...; Region: Era; cd04163 465515003144 G1 box; other site 465515003145 GTP/Mg2+ binding site [chemical binding]; other site 465515003146 Switch I region; other site 465515003147 G2 box; other site 465515003148 Switch II region; other site 465515003149 G3 box; other site 465515003150 G4 box; other site 465515003151 G5 box; other site 465515003152 FOG: CBS domain [General function prediction only]; Region: COG0517 465515003153 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 465515003154 Transporter associated domain; Region: CorC_HlyC; cl08393 465515003155 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 465515003156 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 465515003157 PhoH-like protein; Region: PhoH; cl12134 465515003158 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 465515003159 chaperone protein DnaJ; Provisional; Region: PRK14278 465515003160 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...; Region: DnaJ; cd06257 465515003161 HSP70 interaction site [polypeptide binding]; other site 465515003162 DnaJ central domain; Region: DnaJ_CXXCXGXG; cl14908 465515003163 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 465515003164 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 465515003165 HrcA protein C terminal domain; Region: HrcA; pfam01628 465515003166 Protein of unknown function (DUF3097); Region: DUF3097; pfam11296 465515003167 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3296 465515003168 coproporphyrinogen III oxidase; Validated; Region: PRK05628 465515003169 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 465515003170 FeS/SAM binding site; other site 465515003171 HemN C-terminal region; Region: HemN_C; pfam06969 465515003172 GTP-binding protein LepA; Provisional; Region: PRK05433 465515003173 LepA subfamily. LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and...; Region: LepA; cd01890 465515003174 G1 box; other site 465515003175 putative GEF interaction site [polypeptide binding]; other site 465515003176 GTP/Mg2+ binding site [chemical binding]; other site 465515003177 Switch I region; other site 465515003178 G2 box; other site 465515003179 G3 box; other site 465515003180 Switch II region; other site 465515003181 G4 box; other site 465515003182 G5 box; other site 465515003183 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding...; Region: Translation_Factor_II_like; cl02787 465515003184 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 465515003185 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 465515003186 PemK-like protein; Region: PemK; cl00995 465515003187 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 465515003188 hypothetical protein; Reviewed; Region: PRK07914 465515003189 Competence protein; Region: Competence; cl00471 465515003190 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 465515003191 SLBB domain; Region: SLBB; pfam10531 465515003192 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 465515003193 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl14786 465515003194 Uncharacterised protein, DegV family COG1307; Region: DegV; cl00577 465515003195 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 465515003196 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 465515003197 HIGH motif; other site 465515003198 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 465515003199 active site 465515003200 KMSKS motif; other site 465515003201 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 465515003202 tRNA binding surface [nucleotide binding]; other site 465515003203 anticodon binding site; other site 465515003204 Uncharacterized membrane protein [Function unknown]; Region: COG3949 465515003205 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 465515003206 primosome assembly protein PriA; Provisional; Region: PRK14873 465515003207 S-adenosylmethionine synthetase; Validated; Region: PRK05250 465515003208 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 465515003209 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 465515003210 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 465515003211 Flavoprotein; Region: Flavoprotein; cl08021 465515003212 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 465515003213 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 465515003214 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 465515003215 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...; Region: GMPK; cd00071 465515003216 catalytic site [active] 465515003217 G-X2-G-X-G-K; other site 465515003218 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 465515003219 active site 465515003220 dimer interface [polypeptide binding]; other site 465515003221 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 465515003222 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 465515003223 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 465515003224 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 465515003225 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 465515003226 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 465515003227 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 465515003228 IMP binding site; other site 465515003229 dimer interface [polypeptide binding]; other site 465515003230 interdomain contacts; other site 465515003231 partial ornithine binding site; other site 465515003232 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 465515003233 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 465515003234 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 465515003235 catalytic site [active] 465515003236 subunit interface [polypeptide binding]; other site 465515003237 dihydroorotase; Validated; Region: pyrC; PRK09357 465515003238 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...; Region: metallo-dependent_hydrolases; cl00281 465515003239 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 465515003240 active site 465515003241 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 465515003242 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 465515003243 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515003244 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 465515003245 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 rRNA-...; Region: NusB_Sun; cl00223 465515003246 putative RNA binding site [nucleotide binding]; other site 465515003247 elongation factor P; Validated; Region: PRK00529 465515003248 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 465515003249 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_1; cd04470 465515003250 RNA binding site [nucleotide binding]; other site 465515003251 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 N-formylmethionyl-...; Region: S1_EF-P_repeat_2; cd05794 465515003252 RNA binding site [nucleotide binding]; other site 465515003253 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 465515003254 active site 465515003255 dimer interface [polypeptide binding]; other site 465515003256 metal binding site [ion binding]; metal-binding site 465515003257 shikimate kinase; Reviewed; Region: aroK; PRK00131 465515003258 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...; Region: SK; cd00464 465515003259 ADP binding site [chemical binding]; other site 465515003260 magnesium binding site [ion binding]; other site 465515003261 putative shikimate binding site; other site 465515003262 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 465515003263 Tetramer interface [polypeptide binding]; other site 465515003264 Active site [active] 465515003265 FMN-binding site [chemical binding]; other site 465515003266 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 465515003267 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515003268 YceG-like family; Region: YceG; pfam02618 465515003269 proteins similar to Escherichia coli yceG; Region: yceG_like; cl00675 465515003270 dimerization interface [polypeptide binding]; other site 465515003271 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 465515003272 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 465515003273 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...; Region: AlaRS_core; cd00673 465515003274 motif 1; other site 465515003275 active site 465515003276 motif 2; other site 465515003277 motif 3; other site 465515003278 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 465515003279 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 465515003280 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 465515003281 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 465515003282 RNA binding surface [nucleotide binding]; other site 465515003283 recombination factor protein RarA; Reviewed; Region: PRK13342 465515003284 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...; Region: AAA; cd00009 465515003285 Walker A motif; other site 465515003286 ATP binding site [chemical binding]; other site 465515003287 Walker B motif; other site 465515003288 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 465515003289 Protein of unknown function (DUF1697); Region: DUF1697; cl01557 465515003290 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...; Region: Dtyr_deacylase; cd00563 465515003291 putative active site [active] 465515003292 dimerization interface [polypeptide binding]; other site 465515003293 putative tRNAtyr binding site [nucleotide binding]; other site 465515003294 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 465515003295 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 465515003296 dimer interface [polypeptide binding]; other site 465515003297 anticodon binding site; other site 465515003298 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 465515003299 homodimer interface [polypeptide binding]; other site 465515003300 motif 1; other site 465515003301 active site 465515003302 motif 2; other site 465515003303 GAD domain; Region: GAD; pfam02938 465515003304 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 465515003305 active site 465515003306 motif 3; other site 465515003307 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 465515003308 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 465515003309 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 465515003310 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 465515003311 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 465515003312 dimer interface [polypeptide binding]; other site 465515003313 motif 1; other site 465515003314 active site 465515003315 motif 2; other site 465515003316 motif 3; other site 465515003317 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 465515003318 anticodon binding site; other site 465515003319 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 465515003320 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 465515003321 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 465515003322 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 465515003323 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 465515003324 synthetase active site [active] 465515003325 NTP binding site [chemical binding]; other site 465515003326 metal binding site [ion binding]; metal-binding site 465515003327 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...; Region: TGS_RelA_SpoT; cd01668 465515003328 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 465515003329 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 465515003330 Protein export membrane protein; Region: SecD_SecF; cl14618 465515003331 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 465515003332 Protein export membrane protein; Region: SecD_SecF; cl14618 465515003333 Preprotein translocase subunit; Region: YajC; cl00806 465515003334 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 465515003335 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...; Region: AAA; cd00009 465515003336 Walker A motif; other site 465515003337 ATP binding site [chemical binding]; other site 465515003338 Walker B motif; other site 465515003339 arginine finger; other site 465515003340 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 465515003341 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 465515003342 RuvA N terminal domain; Region: RuvA_N; pfam01330 465515003343 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 465515003344 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 465515003345 active site 465515003346 putative DNA-binding cleft [nucleotide binding]; other site 465515003347 dimer interface [polypeptide binding]; other site 465515003348 Domain of unknown function DUF28; Region: DUF28; cl00361 465515003349 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 465515003350 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 465515003351 Zn binding site [ion binding]; other site 465515003352 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 465515003353 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 465515003354 SelR domain; Region: SelR; cl00369 465515003355 Protein of unknown function (DUF3000); Region: DUF3000; pfam11452 465515003356 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 465515003357 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 465515003358 putative active site [active] 465515003359 catalytic site [active] 465515003360 putative substrate binding site [chemical binding]; other site 465515003361 HRDC domain; Region: HRDC; cl02578 465515003362 fatty oxidation complex, alpha subunit FadJ; Region: FadJ; TIGR02440 465515003363 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 465515003364 substrate binding site [chemical binding]; other site 465515003365 oxyanion hole (OAH) forming residues; other site 465515003366 trimer interface [polypeptide binding]; other site 465515003367 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 465515003368 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 465515003369 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1)...; Region: Rieske; cd03467 465515003370 iron-sulfur cluster [ion binding]; other site 465515003371 [2Fe-2S] cluster binding site [ion binding]; other site 465515003372 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...; Region: Aldo_ket_red; cd06660 465515003373 active site 465515003374 catalytic tetrad [active] 465515003375 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 465515003376 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...; Region: TPP_enzymes; cl01629 465515003377 TPP-binding site [chemical binding]; other site 465515003378 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...; Region: TPP_enzymes; cl01629 465515003379 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 465515003380 PYR/PP interface [polypeptide binding]; other site 465515003381 dimer interface [polypeptide binding]; other site 465515003382 TPP binding site [chemical binding]; other site 465515003383 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 465515003384 aconitate hydratase; Validated; Region: PRK09277 465515003385 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 465515003386 substrate binding site [chemical binding]; other site 465515003387 ligand binding site [chemical binding]; other site 465515003388 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 465515003389 substrate binding site [chemical binding]; other site 465515003390 TRAM domain; Region: TRAM; cl01282 465515003391 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 465515003392 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 465515003393 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 465515003394 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 465515003395 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515003396 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 465515003397 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515003398 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; cl09110 465515003399 Protein of unknown function (DUF3159); Region: DUF3159; pfam11361 465515003400 Protein of unknown function (DUF3710); Region: DUF3710; pfam12502 465515003401 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 465515003402 trimer interface [polypeptide binding]; other site 465515003403 active site 465515003404 Protein of unknown function (DUF3093); Region: DUF3093; pfam11292 465515003405 Protein of unknown function (DUF3071); Region: DUF3071; pfam11268 465515003406 Sulfatase; Region: Sulfatase; cl10460 465515003407 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 465515003408 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 465515003409 acetyl coenzyme A synthetase (ADP forming), alpha domain; Region: AcCoA-syn-alpha; TIGR02717 465515003410 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 465515003411 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...; Region: TOP4c; cd00187 465515003412 CAP-like domain; other site 465515003413 Active site [active] 465515003414 primary dimer interface [polypeptide binding]; other site 465515003415 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 465515003416 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 465515003417 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 465515003418 Walker A/P-loop; other site 465515003419 ATP binding site [chemical binding]; other site 465515003420 Q-loop/lid; other site 465515003421 ABC transporter signature motif; other site 465515003422 Walker B; other site 465515003423 D-loop; other site 465515003424 H-loop/switch region; other site 465515003425 thiol reductant ABC exporter, CydC subunit; Region: CydC; TIGR02868 465515003426 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 465515003427 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 465515003428 Walker A/P-loop; other site 465515003429 ATP binding site [chemical binding]; other site 465515003430 Q-loop/lid; other site 465515003431 ABC transporter signature motif; other site 465515003432 Walker B; other site 465515003433 D-loop; other site 465515003434 H-loop/switch region; other site 465515003435 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 465515003436 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 465515003437 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 465515003438 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 465515003439 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09258 465515003440 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 465515003441 active site 465515003442 haloalkane dehalogenase; Provisional; Region: PRK03592 465515003443 peptide synthase; Provisional; Region: PRK09274 465515003444 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 465515003445 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515003446 NAD(P) binding site [chemical binding]; other site 465515003447 active site 465515003448 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 465515003449 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 465515003450 ATP binding site [chemical binding]; other site 465515003451 Mg2+ binding site [ion binding]; other site 465515003452 G-X-G motif; other site 465515003453 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 465515003454 anchoring element; other site 465515003455 dimer interface [polypeptide binding]; other site 465515003456 ATP binding site [chemical binding]; other site 465515003457 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 465515003458 active site 465515003459 metal binding site [ion binding]; metal-binding site 465515003460 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 465515003461 RNA polymerase sigma factor SigB; Reviewed; Region: PRK07921 465515003462 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 465515003463 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 465515003464 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 465515003465 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...; Region: Sigma70_r4; cd06171 465515003466 DNA binding residues [nucleotide binding] 465515003467 PAC2 family; Region: PAC2; cl00847 465515003468 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...; Region: Peptidase_M17; cd00433 465515003469 interface (dimer of trimers) [polypeptide binding]; other site 465515003470 Substrate-binding/catalytic site; other site 465515003471 Zn-binding sites [ion binding]; other site 465515003472 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 465515003473 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515003474 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 465515003475 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 465515003476 E3 interaction surface; other site 465515003477 lipoyl attachment site [posttranslational modification]; other site 465515003478 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 465515003479 E3 interaction surface; other site 465515003480 lipoyl attachment site [posttranslational modification]; other site 465515003481 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11857 465515003482 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 465515003483 Catalytic domain of Protein Kinases; Region: PKc; cd00180 465515003484 active site 465515003485 ATP binding site [chemical binding]; other site 465515003486 substrate binding site [chemical binding]; other site 465515003487 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 465515003488 lipoyl synthase; Provisional; Region: PRK05481 465515003489 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 465515003490 FeS/SAM binding site; other site 465515003491 RDD family; Region: RDD; cl00746 465515003492 glutamine synthetase, type I; Region: GlnA; TIGR00653 465515003493 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 465515003494 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 465515003495 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 465515003496 Coenzyme F420-dependent N5,N10-methylene tetrahydromethanopterin reductase and related flavin-dependent oxidoreductases [Energy production and conversion]; Region: COG2141 465515003497 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14109 465515003498 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 465515003499 metal binding triad; other site 465515003500 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 465515003501 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 465515003502 metal binding triad; other site 465515003503 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 465515003504 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 465515003505 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 465515003506 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 465515003507 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 465515003508 active site 465515003509 oligomerization interface [polypeptide binding]; other site 465515003510 metal binding site [ion binding]; metal-binding site 465515003511 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 465515003512 active site 465515003513 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 465515003514 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 465515003515 ATP cone domain; Region: ATP-cone; pfam03477 465515003516 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 465515003517 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 465515003518 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 465515003519 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...; Region: DnaE_OBF; cd04485 465515003520 generic binding surface II; other site 465515003521 generic binding surface I; other site 465515003522 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 465515003523 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...; Region: PseudoU_synth_RluCD_like; cd02869 465515003524 active site 465515003525 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 465515003526 DivIVA domain; Region: DivI1A_domain; TIGR03544 465515003527 Protein of unknown function (DUF552); Region: DUF552; cl00775 465515003528 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 465515003529 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 465515003530 catalytic residue [active] 465515003531 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 465515003532 cell division protein FtsZ; Validated; Region: PRK09330 465515003533 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...; Region: FtsZ_type1; cd02201 465515003534 nucleotide binding site [chemical binding]; other site 465515003535 SulA interaction site; other site 465515003536 cell division protein FtsQ; Provisional; Region: PRK05529 465515003537 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 465515003538 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 465515003539 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 465515003540 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...; Region: GT1_MurG; cd03785 465515003541 active site 465515003542 homodimer interface [polypeptide binding]; other site 465515003543 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 465515003544 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01438 465515003545 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 465515003546 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 465515003547 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 undecaprenyl-pyrophosphoryl-N-...; Region: GT_MraY; cd06852 465515003548 Mg++ binding site [ion binding]; other site 465515003549 putative catalytic motif [active] 465515003550 putative substrate binding site [chemical binding]; other site 465515003551 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 465515003552 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 465515003553 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 465515003554 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 465515003555 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 465515003556 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 465515003557 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 465515003558 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 465515003559 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 465515003560 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 465515003561 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 465515003562 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 465515003563 cell division protein MraZ; Reviewed; Region: PRK00326 465515003564 MraZ protein; Region: MraZ; pfam02381 465515003565 MraZ protein; Region: MraZ; pfam02381 465515003566 Protein of unknown function (DUF3040); Region: DUF3040; pfam11239 465515003567 DNA polymerase IV; Validated; Region: PRK03858 465515003568 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 465515003569 active site 465515003570 DNA binding site [nucleotide binding] 465515003571 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 465515003572 substrate binding pocket [chemical binding]; other site 465515003573 chain length determination region; other site 465515003574 substrate-Mg2+ binding site; other site 465515003575 catalytic residues [active] 465515003576 aspartate-rich region 1; other site 465515003577 active site lid residues [active] 465515003578 aspartate-rich region 2; other site 465515003579 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 465515003580 putative peptidoglycan binding site; other site 465515003581 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 465515003582 putative peptidoglycan binding site; other site 465515003583 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 465515003584 putative peptidoglycan binding site; other site 465515003585 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 465515003586 N-acetyl-D-glucosamine binding site [chemical binding]; other site 465515003587 catalytic residue [active] 465515003588 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 465515003589 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 465515003590 active site 465515003591 ATP binding site [chemical binding]; other site 465515003592 substrate binding site [chemical binding]; other site 465515003593 activation loop (A-loop); other site 465515003594 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 465515003595 PASTA domain. This domain is found at the C-termini of several Penicillin-binding proteins (PBPs) and bacterial serine/threonine kinases. It is a small globular fold consisting of 3 beta-sheets and an alpha-helix. The name PASTA is derived from PBP and...; Region: PASTA; cl02768 465515003596 Class-II DAHP synthetase family; Region: DAHP_synth_2; cl03230 465515003597 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 465515003598 putative acyl-acceptor binding pocket; other site 465515003599 Esterase/lipase [General function prediction only]; Region: COG1647 465515003600 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 465515003601 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 465515003602 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 465515003603 mycothione reductase; Reviewed; Region: PRK07846 465515003604 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515003605 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 465515003606 pyruvate carboxylase; Reviewed; Region: PRK12999 465515003607 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 465515003608 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 465515003609 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 465515003610 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 465515003611 active site 465515003612 catalytic residues [active] 465515003613 metal binding site [ion binding]; metal-binding site 465515003614 homodimer binding site [polypeptide binding]; other site 465515003615 Conserved carboxylase domain; Region: PYC_OADA; pfam02436 465515003616 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 465515003617 carboxyltransferase (CT) interaction site; other site 465515003618 biotinylation site [posttranslational modification]; other site 465515003619 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 465515003620 DNA binding residues [nucleotide binding] 465515003621 putative dimer interface [polypeptide binding]; other site 465515003622 Uncharacterised ACR, COG1259; Region: DUF151; cl00553 465515003623 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 465515003624 DNA binding residues [nucleotide binding] 465515003625 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 465515003626 phosphopeptide binding site; other site 465515003627 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 L-...; Region: GCS_H; cd06848 465515003628 lipoyl attachment site [posttranslational modification]; other site 465515003629 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 465515003630 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 465515003631 Cation efflux family; Region: Cation_efflux; cl00316 465515003632 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 465515003633 Protein of unknown function (DUF3024); Region: DUF3024; pfam11225 465515003634 putative transposase OrfB; Reviewed; Region: PHA02517 465515003635 Transposase, Mutator family; Region: Transposase_mut; pfam00872 465515003636 MULE transposase domain; Region: MULE; pfam10551 465515003637 Integrase core domain; Region: rve; cl01316 465515003638 GTP-binding protein Der; Reviewed; Region: PRK03003 465515003639 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA1; cd01894 465515003640 G1 box; other site 465515003641 GTP/Mg2+ binding site [chemical binding]; other site 465515003642 Switch I region; other site 465515003643 G2 box; other site 465515003644 Switch II region; other site 465515003645 G3 box; other site 465515003646 G4 box; other site 465515003647 G5 box; other site 465515003648 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA2; cd01895 465515003649 G1 box; other site 465515003650 GTP/Mg2+ binding site [chemical binding]; other site 465515003651 Switch I region; other site 465515003652 G2 box; other site 465515003653 G3 box; other site 465515003654 Switch II region; other site 465515003655 G4 box; other site 465515003656 G5 box; other site 465515003657 cytidylate kinase; Provisional; Region: cmk; PRK00023 465515003658 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 465515003659 CMP-binding site; other site 465515003660 The sites determining sugar specificity; other site 465515003661 prephenate dehydrogenase; Validated; Region: PRK06545 465515003662 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515003663 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-...; Region: CBS_pair; cl09141 465515003664 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 465515003665 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 465515003666 RNA binding surface [nucleotide binding]; other site 465515003667 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 465515003668 active site 465515003669 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 465515003670 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following...; Region: ParA; cd02042 465515003671 P-loop; other site 465515003672 Magnesium ion binding site [ion binding]; other site 465515003673 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following...; Region: ParA; cd02042 465515003674 Magnesium ion binding site [ion binding]; other site 465515003675 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 465515003676 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 465515003677 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 465515003678 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 465515003679 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 465515003680 active site 465515003681 phosphorylation site [posttranslational modification] 465515003682 intermolecular recognition site; other site 465515003683 dimerization interface [polypeptide binding]; other site 465515003684 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 465515003685 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 465515003686 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 465515003687 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 465515003688 DNA-binding site [nucleotide binding]; DNA binding site 465515003689 FCD domain; Region: FCD; cl11656 465515003690 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 465515003691 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 465515003692 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 465515003693 tetramer interface [polypeptide binding]; other site 465515003694 active site 465515003695 Mg2+/Mn2+ binding site [ion binding]; other site 465515003696 citrate synthase; Provisional; Region: PRK14033 465515003697 Citrate synthase (CS), citryl-CoA lyase (CCL), the C-terminal portion of the single-subunit type ATP-citrate lyase (ACL) and the C-terminal portion of the large subunit of the two-subunit type ACL. CS catalyzes the condensation of acetyl coenzyme A (...; Region: CS_ACL-C_CCL; cl00416 465515003698 oxalacetate binding site [chemical binding]; other site 465515003699 citrylCoA binding site [chemical binding]; other site 465515003700 coenzyme A binding site [chemical binding]; other site 465515003701 catalytic triad [active] 465515003702 CTP synthetase; Validated; Region: pyrG; PRK05380 465515003703 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...; Region: CTGs; cd03113 465515003704 Catalytic site [active] 465515003705 Active site [active] 465515003706 UTP binding site [chemical binding]; other site 465515003707 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 465515003708 active site 465515003709 putative oxyanion hole; other site 465515003710 catalytic triad [active] 465515003711 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 465515003712 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 465515003713 DNA binding site [nucleotide binding] 465515003714 Int/Topo IB signature motif; other site 465515003715 active site 465515003716 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...; Region: ADPRase_NUDT5; cd03424 465515003717 dimer interface [polypeptide binding]; other site 465515003718 ADP-ribose binding site [chemical binding]; other site 465515003719 active site 465515003720 nudix motif; other site 465515003721 metal binding site [ion binding]; metal-binding site 465515003722 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 465515003723 Walker A/P-loop; other site 465515003724 ATP binding site [chemical binding]; other site 465515003725 Q-loop/lid; other site 465515003726 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 465515003727 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...; Region: ABC_RecN; cd03241 465515003728 ABC transporter signature motif; other site 465515003729 Walker B; other site 465515003730 D-loop; other site 465515003731 H-loop/switch region; other site 465515003732 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 465515003733 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 465515003734 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 465515003735 Haloacid Dehalogenase Superfamily Class (subfamily) IIA; Region: HAD-SF-IIA; TIGR01460 465515003736 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 465515003737 motif II; other site 465515003738 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; cl11391 465515003739 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3415 465515003740 Integrase core domain; Region: rve; cl01316 465515003741 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 465515003742 Transposase; Region: DDE_Tnp_ISL3; pfam01610 465515003743 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 465515003744 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 465515003745 active site 465515003746 HIGH motif; other site 465515003747 dimer interface [polypeptide binding]; other site 465515003748 KMSKS motif; other site 465515003749 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 465515003750 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 465515003751 UvrD/REP helicase; Region: UvrD-helicase; cl14126 465515003752 UvrD/REP helicase; Region: UvrD-helicase; cl14126 465515003753 argininosuccinate lyase; Provisional; Region: PRK00855 465515003754 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 465515003755 active sites [active] 465515003756 tetramer interface [polypeptide binding]; other site 465515003757 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 465515003758 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 465515003759 ANP binding site [chemical binding]; other site 465515003760 Substrate Binding Site II [chemical binding]; other site 465515003761 Substrate Binding Site I [chemical binding]; other site 465515003762 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 465515003763 Transposase; Region: DDE_Tnp_ISL3; pfam01610 465515003764 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 465515003765 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 465515003766 putative peptidoglycan binding site; other site 465515003767 arginine repressor; Provisional; Region: PRK03341 465515003768 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 465515003769 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 465515003770 ornithine carbamoyltransferase; Provisional; Region: PRK00779 465515003771 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 465515003772 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515003773 acetylornithine aminotransferase; Provisional; Region: argD; PRK03244 465515003774 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 465515003775 inhibitor-cofactor binding pocket; inhibition site 465515003776 pyridoxal 5'-phosphate binding site [chemical binding]; other site 465515003777 catalytic residue [active] 465515003778 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using...; Region: AAK_NAGK-C; cd04250 465515003779 feedback inhibition sensing region; other site 465515003780 homohexameric interface [polypeptide binding]; other site 465515003781 nucleotide binding site [chemical binding]; other site 465515003782 N-acetyl-L-glutamate binding site [chemical binding]; other site 465515003783 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...; Region: OAT; cd02152 465515003784 heterotetramer interface [polypeptide binding]; other site 465515003785 active site pocket [active] 465515003786 cleavage site 465515003787 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 465515003788 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515003789 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 465515003790 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 465515003791 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 465515003792 NADP binding site [chemical binding]; other site 465515003793 dimer interface [polypeptide binding]; other site 465515003794 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 465515003795 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 465515003796 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 465515003797 Phosphopantetheine attachment site; Region: PP-binding; cl09936 465515003798 non-ribosomal peptide synthetase terminal domain of unknown function; Region: NRPS_term_dom; TIGR02353 465515003799 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 465515003800 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 465515003801 putative trimer interface [polypeptide binding]; other site 465515003802 putative CoA binding site [chemical binding]; other site 465515003803 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 465515003804 Zn binding site [ion binding]; other site 465515003805 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 465515003806 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 465515003807 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 465515003808 putative tRNA-binding site [nucleotide binding]; other site 465515003809 B3/4 domain; Region: B3_4; cl11458 465515003810 tRNA synthetase B5 domain; Region: B5; cl08394 465515003811 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 465515003812 dimer interface [polypeptide binding]; other site 465515003813 motif 1; other site 465515003814 motif 3; other site 465515003815 motif 2; other site 465515003816 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 465515003817 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 465515003818 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 465515003819 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 465515003820 dimer interface [polypeptide binding]; other site 465515003821 motif 1; other site 465515003822 active site 465515003823 motif 2; other site 465515003824 motif 3; other site 465515003825 CHY zinc finger; Region: zf-CHY; cl14900 465515003826 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 465515003827 putative substrate binding pocket [chemical binding]; other site 465515003828 AC domain interface; other site 465515003829 catalytic triad [active] 465515003830 AB domain interface; other site 465515003831 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; cl15259 465515003832 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 465515003833 active site 465515003834 8-oxo-dGMP binding site [chemical binding]; other site 465515003835 nudix motif; other site 465515003836 metal binding site [ion binding]; metal-binding site 465515003837 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 465515003838 Major Facilitator Superfamily; Region: MFS_1; pfam07690 465515003839 putative substrate translocation pore; other site 465515003840 hypothetical protein; Provisional; Region: PRK04081 465515003841 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 465515003842 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 465515003843 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 465515003844 23S rRNA binding site [nucleotide binding]; other site 465515003845 L21 binding site [polypeptide binding]; other site 465515003846 L13 binding site [polypeptide binding]; other site 465515003847 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 465515003848 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 465515003849 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 465515003850 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 465515003851 Transcription factor WhiB; Region: Whib; pfam02467 465515003852 Signal transduction histidine kinase; Region: H_kinase_N; pfam12282 465515003853 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 465515003854 Histidine kinase; Region: HisKA_2; cl06527 465515003855 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 465515003856 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 465515003857 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras...; Region: Ras_like_GTPase; cl10444 465515003858 SAF domain; Region: SAF; cl00555 465515003859 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 465515003860 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 465515003861 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 465515003862 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 465515003863 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 465515003864 nucleotide binding region [chemical binding]; other site 465515003865 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site...; Region: RaiA; cl00250 465515003866 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 465515003867 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 465515003868 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 465515003869 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 connected by an extended linker. The...; Region: HAMP; cd06225 465515003870 dimerization interface [polypeptide binding]; other site 465515003871 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 trans-...; Region: HisKA; cd00082 465515003872 dimer interface [polypeptide binding]; other site 465515003873 phosphorylation site [posttranslational modification] 465515003874 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 465515003875 ATP binding site [chemical binding]; other site 465515003876 Mg2+ binding site [ion binding]; other site 465515003877 G-X-G motif; other site 465515003878 Ycf27; Reviewed; Region: orf27; CHL00148 465515003879 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 465515003880 active site 465515003881 phosphorylation site [posttranslational modification] 465515003882 intermolecular recognition site; other site 465515003883 dimerization interface [polypeptide binding]; other site 465515003884 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...; Region: trans_reg_C; cd00383 465515003885 DNA binding site [nucleotide binding] 465515003886 Chorismate mutase type II; Region: CM_2; cl00693 465515003887 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 465515003888 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 465515003889 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 465515003890 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 465515003891 catalytic residue [active] 465515003892 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 465515003893 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 465515003894 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 465515003895 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515003896 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; cl09110 465515003897 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 465515003898 Cation transport protein; Region: TrkH; cl10514 465515003899 dihydropteroate synthase; Region: DHPS; TIGR01496 465515003900 Pterin binding enzymes. This family includes dihydropteroate synthase (DHPS) and cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). DHPS, a...; Region: Pterin_binding; cl00219 465515003901 substrate binding pocket [chemical binding]; other site 465515003902 dimer interface [polypeptide binding]; other site 465515003903 inhibitor binding site; inhibition site 465515003904 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 5,10-...; Region: DHFR; cl00161 465515003905 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...; Region: DnaJ; cd06257 465515003906 HSP70 interaction site [polypeptide binding]; other site 465515003907 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 465515003908 RNA polymerase sigma factor SigK; Reviewed; Region: PRK09646 465515003909 Anti-sigma-K factor rskA; Region: RskA; cl02208 465515003910 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 465515003911 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 465515003912 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 465515003913 Domain of unknown function (DUF477); Region: DUF477; cl01535 465515003914 hypothetical protein; Validated; Region: PRK09039 465515003915 PspA/IM30 family; Region: PspA_IM30; pfam04012 465515003916 phage shock protein PspA; Provisional; Region: PRK10698 465515003917 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 465515003918 Uncharacterized conserved protein [Function unknown]; Region: COG1615; cl09133 465515003919 Uncharacterised protein family (UPF0182); Region: UPF0182; pfam03699 465515003920 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 465515003921 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 465515003922 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 465515003923 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...; Region: PDZ_metalloprotease; cd00989 465515003924 Uncharacterised conserved protein (DUF2342); Region: DUF2342; cl02183 465515003925 Protein of unknown function DUF45; Region: DUF45; cl00636 465515003926 UvrD/REP helicase; Region: UvrD-helicase; cl14126 465515003927 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 465515003928 HRDC domain; Region: HRDC; cl02578 465515003929 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 465515003930 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 465515003931 putative NADH binding site [chemical binding]; other site 465515003932 putative active site [active] 465515003933 nudix motif; other site 465515003934 putative metal binding site [ion binding]; other site 465515003935 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 465515003936 active site 465515003937 ATP binding site [chemical binding]; other site 465515003938 UvrD/REP helicase; Region: UvrD-helicase; cl14126 465515003939 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 465515003940 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 465515003941 UvrD/REP helicase; Region: UvrD-helicase; cl14126 465515003942 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 465515003943 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 465515003944 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cl01497 465515003945 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 465515003946 active site 465515003947 substrate binding site [chemical binding]; other site 465515003948 catalytic site [active] 465515003949 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 465515003950 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 465515003951 inhibitor-cofactor binding pocket; inhibition site 465515003952 pyridoxal 5'-phosphate binding site [chemical binding]; other site 465515003953 catalytic residue [active] 465515003954 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 465515003955 dimer interface [polypeptide binding]; other site 465515003956 active site 465515003957 Schiff base residues; other site 465515003958 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 465515003959 LabA_like proteins. A well conserved group of bacterial proteins with no defined function. LabA, a member from Synechococcus elongatus PCC 7942, has been shown to play a role in cyanobacterial circadian timing. It is required for negative feedback...; Region: LabA_like; cd06167 465515003960 putative metal binding site [ion binding]; other site 465515003961 LOTUS is an uncharacterized small globular domain found in Limkain b1, Oskar and Tudor-containing proteins 5 and 7; Region: LOTUS; cl14879 465515003962 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...; Region: HemD; cd06578 465515003963 active site 465515003964 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 465515003965 Hydroxymethylbilane synthase (HMBS), also known as porphobilinogen deaminase (PBGD), is an intermediate enzyme in the biosynthetic pathway of tetrapyrrolic ring systems, such as heme, chlorophylls, and vitamin B12. HMBS catalyzes the conversion of...; Region: HMBS; cl03189 465515003966 domain interfaces; other site 465515003967 active site 465515003968 ferrochelatase; Reviewed; Region: hemH; PRK00035 465515003969 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 465515003970 C-terminal domain interface [polypeptide binding]; other site 465515003971 active site 465515003972 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 465515003973 active site 465515003974 N-terminal domain interface [polypeptide binding]; other site 465515003975 Chlorite dismutase; Region: Chlor_dismutase; cl01280 465515003976 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515003977 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...; Region: URO-D; cd00717 465515003978 substrate binding site [chemical binding]; other site 465515003979 active site 465515003980 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 465515003981 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515003982 NAD(P) binding pocket [chemical binding]; other site 465515003983 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 465515003984 DNA-binding transcriptional regulator EnvR; Provisional; Region: PRK09975 465515003985 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 465515003986 Protein of unknown function (DUF3107); Region: DUF3107; pfam11305 465515003987 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 465515003988 RNB domain; Region: RNB; pfam00773 465515003989 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 465515003990 DEAD-like helicases superfamily; Region: DEXDc; smart00487 465515003991 ATP binding site [chemical binding]; other site 465515003992 Mg++ binding site [ion binding]; other site 465515003993 motif III; other site 465515003994 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 465515003995 nucleotide binding region [chemical binding]; other site 465515003996 ATP-binding site [chemical binding]; other site 465515003997 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 465515003998 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 465515003999 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 465515004000 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action...; Region: Prolidase; cd01087 465515004001 active site 465515004002 pyruvate kinase; Validated; Region: PRK08187 465515004003 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 465515004004 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 465515004005 active site 465515004006 MgtE intracellular N domain; Region: MgtE_N; cl15244 465515004007 FOG: CBS domain [General function prediction only]; Region: COG0517 465515004008 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 465515004009 Protein of unknown function (DUF1003); Region: DUF1003; cl01831 465515004010 Domain of unknown function DUF59; Region: DUF59; cl00941 465515004011 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 465515004012 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 465515004013 mycothiol system anti-sigma-R factor; Region: antisig_RsrA; cl11829 465515004014 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 465515004015 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 465515004016 Protein of unknown function (DUF3117); Region: DUF3117; pfam11314 465515004017 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 465515004018 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 465515004019 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; Region: ABC_HisP_GlnQ_permeases; cd03262 465515004020 Walker A/P-loop; other site 465515004021 ATP binding site [chemical binding]; other site 465515004022 Q-loop/lid; other site 465515004023 ABC transporter signature motif; other site 465515004024 Walker B; other site 465515004025 D-loop; other site 465515004026 H-loop/switch region; other site 465515004027 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 465515004028 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...; Region: PBPb; cd00134 465515004029 substrate binding pocket [chemical binding]; other site 465515004030 membrane-bound complex binding site; other site 465515004031 hinge residues; other site 465515004032 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...; Region: TM_PBP2; cd06261 465515004033 dimer interface [polypeptide binding]; other site 465515004034 conserved gate region; other site 465515004035 ABC-ATPase subunit interface; other site 465515004036 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...; Region: TM_PBP2; cd06261 465515004037 dimer interface [polypeptide binding]; other site 465515004038 conserved gate region; other site 465515004039 putative PBP binding loops; other site 465515004040 ABC-ATPase subunit interface; other site 465515004041 M20 Peptidase actinobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_actinobac; cd05647 465515004042 Peptidase family M20/M25/M40; Region: Peptidase_M20; pfam01546 465515004043 metal binding site [ion binding]; metal-binding site 465515004044 putative dimer interface [polypeptide binding]; other site 465515004045 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_actino; TIGR03535 465515004046 Putative 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (THP succinyltransferase), C-terminal left-handed parallel alpha-helix (LbH) domain: This group is composed of mostly uncharacterized proteins containing an N-terminal...; Region: LbH_THP_succinylT_putative; cd04649 465515004047 putative trimer interface [polypeptide binding]; other site 465515004048 putative CoA binding site [chemical binding]; other site 465515004049 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 465515004050 Escherichia coli (Ec) citrate synthase (CS) GltA_like. CS catalyzes the condensation of acetyl coenzyme A (AcCoA) and oxalacetate (OAA) to form citrate and coenzyme A (CoA), the first step in the citric acid cycle (TCA or Krebs cycle). The overall CS...; Region: EcCS_like; cd06114 465515004051 dimer interface [polypeptide binding]; other site 465515004052 Citrate synthase; Region: Citrate_synt; pfam00285 465515004053 active site 465515004054 citrylCoA binding site [chemical binding]; other site 465515004055 NADH binding [chemical binding]; other site 465515004056 cationic pore residues; other site 465515004057 oxalacetate/citrate binding site [chemical binding]; other site 465515004058 coenzyme A binding site [chemical binding]; other site 465515004059 catalytic triad [active] 465515004060 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 465515004061 pyridoxal 5'-phosphate binding site [chemical binding]; other site 465515004062 homodimer interface [polypeptide binding]; other site 465515004063 catalytic residue [active] 465515004064 Ferredoxin [Energy production and conversion]; Region: COG1146 465515004065 4Fe-4S binding domain; Region: Fer4; cl02805 465515004066 TypA (tyrosine phosphorylated protein A)/BipA subfamily. BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella...; Region: TypA_BipA; cd01891 465515004067 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 465515004068 G1 box; other site 465515004069 putative GEF interaction site [polypeptide binding]; other site 465515004070 GTP/Mg2+ binding site [chemical binding]; other site 465515004071 Switch I region; other site 465515004072 G2 box; other site 465515004073 G3 box; other site 465515004074 Switch II region; other site 465515004075 G4 box; other site 465515004076 G5 box; other site 465515004077 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 465515004078 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...; Region: BipA_TypA_C; cd03710 465515004079 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 465515004080 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 465515004081 Walker A/P-loop; other site 465515004082 ATP binding site [chemical binding]; other site 465515004083 Q-loop/lid; other site 465515004084 ABC transporter signature motif; other site 465515004085 Walker B; other site 465515004086 D-loop; other site 465515004087 H-loop/switch region; other site 465515004088 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 465515004089 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 465515004090 Walker A/P-loop; other site 465515004091 ATP binding site [chemical binding]; other site 465515004092 Q-loop/lid; other site 465515004093 ABC transporter signature motif; other site 465515004094 Walker B; other site 465515004095 D-loop; other site 465515004096 H-loop/switch region; other site 465515004097 oligopeptide ABC transporter permease OppC; Provisional; Region: PRK15406 465515004098 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 465515004099 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...; Region: TM_PBP2; cd06261 465515004100 dimer interface [polypeptide binding]; other site 465515004101 conserved gate region; other site 465515004102 putative PBP binding loops; other site 465515004103 ABC-ATPase subunit interface; other site 465515004104 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...; Region: TM_PBP2; cl00427 465515004105 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...; Region: TM_PBP2; cd06261 465515004106 dimer interface [polypeptide binding]; other site 465515004107 ABC-ATPase subunit interface; other site 465515004108 putative PBP binding loops; other site 465515004109 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 465515004110 The substrate-binding domain of mycobacterial lipoprotein Lpqw contains type 2 periplasmic binding fold; Region: PBP2_Lpqw; cd08501 465515004111 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 465515004112 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515004113 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515004114 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 465515004115 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...; Region: Tryp_SPc; cl00149 465515004116 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 C-...; Region: PDZ_serine_protease; cd00987 465515004117 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 465515004118 dimer interface [polypeptide binding]; other site 465515004119 catalytic triad [active] 465515004120 peroxidatic and resolving cysteines [active] 465515004121 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 465515004122 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 465515004123 active site 465515004124 nucleophile elbow; other site 465515004125 Predicted membrane protein [Function unknown]; Region: COG4125 465515004126 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 465515004127 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 465515004128 Ferritin-like domain; Region: Ferritin; pfam00210 465515004129 ferroxidase diiron center [ion binding]; other site 465515004130 Protein of unknown function (DUF808); Region: DUF808; cl01002 465515004131 acyl-CoA esterase; Provisional; Region: PRK10673 465515004132 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 465515004133 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...; Region: Nudix_Hydrolase; cl00447 465515004134 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...; Region: Nudix_Hydrolase; cl00447 465515004135 Quinolinate synthetase A protein; Region: NadA; cl00420 465515004136 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06543 465515004137 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with 5-...; Region: QPRTase; cd01572 465515004138 dimerization interface [polypeptide binding]; other site 465515004139 active site 465515004140 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 465515004141 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 465515004142 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 465515004143 catalytic residue [active] 465515004144 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 465515004145 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 465515004146 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...; Region: TM_PBP2; cd06261 465515004147 dimer interface [polypeptide binding]; other site 465515004148 conserved gate region; other site 465515004149 putative PBP binding loops; other site 465515004150 ABC-ATPase subunit interface; other site 465515004151 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 465515004152 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...; Region: ABC_OpuCA_Osmoprotection; cd03295 465515004153 Walker A/P-loop; other site 465515004154 ATP binding site [chemical binding]; other site 465515004155 Q-loop/lid; other site 465515004156 ABC transporter signature motif; other site 465515004157 Walker B; other site 465515004158 D-loop; other site 465515004159 H-loop/switch region; other site 465515004160 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...; Region: TM_PBP2; cl00427 465515004161 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 465515004162 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 465515004163 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 465515004164 putative substrate translocation pore; other site 465515004165 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 465515004166 bifunctional 3'-5' exonuclease/DNA polymerase; Provisional; Region: PRK14975 465515004167 Family A polymerase primarily fills DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A; cd06444 465515004168 active site 465515004169 DNA binding site [nucleotide binding] 465515004170 catalytic site [active] 465515004171 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 465515004172 Major Facilitator Superfamily; Region: MFS_1; pfam07690 465515004173 putative substrate translocation pore; other site 465515004174 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 465515004175 RF-1 domain; Region: RF-1; cl02875 465515004176 Beta-lactamase; Region: Beta-lactamase; cl01009 465515004177 nitrobindin heme-binding domain; Region: nitrobindin; cd07828 465515004178 heme-binding site [chemical binding]; other site 465515004179 Protein of unknown function (DUF2945); Region: DUF2945; pfam11160 465515004180 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 465515004181 Cation efflux family; Region: Cation_efflux; cl00316 465515004182 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515004183 Uncharacterized conserved protein [Function unknown]; Region: COG3268 465515004184 NAD(P) binding site [chemical binding]; other site 465515004185 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 465515004186 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 465515004187 Galactose-1-phosphate uridylyltransferase [Energy production and conversion]; Region: GalT; COG1085 465515004188 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the...; Region: HIT_like; cl00228 465515004189 nucleotide binding site/active site [active] 465515004190 HIT family signature motif; other site 465515004191 catalytic residue [active] 465515004192 succinate CoA transferases; Region: YgfH_subfam; TIGR03458 465515004193 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 465515004194 OsmC-like protein; Region: OsmC; cl00767 465515004195 Transcriptional regulators [Transcription]; Region: MarR; COG1846 465515004196 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 465515004197 short chain dehydrogenase; Validated; Region: PRK05855 465515004198 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 465515004199 Prostaglandin dehydrogenases; Region: PGDH; cd05288 465515004200 NAD(P) binding site [chemical binding]; other site 465515004201 substrate binding site [chemical binding]; other site 465515004202 dimer interface [polypeptide binding]; other site 465515004203 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 465515004204 potential catalytic triad [active] 465515004205 conserved cys residue [active] 465515004206 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 465515004207 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 465515004208 Walker A/P-loop; other site 465515004209 ATP binding site [chemical binding]; other site 465515004210 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 465515004211 Q-loop/lid; other site 465515004212 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...; Region: ABCF_EF-3; cd03221 465515004213 ABC transporter; Region: ABC_tran_2; pfam12848 465515004214 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...; Region: ABCF_EF-3; cd03221 465515004215 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 465515004216 nucleophile elbow; other site 465515004217 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 465515004218 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-...; Region: MIP; cd00333 465515004219 amphipathic channel; other site 465515004220 Asn-Pro-Ala signature motifs; other site 465515004221 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 465515004222 Histidine phosphatase superfamily (branch 1); Region: His_Phos_1; pfam00300 465515004223 catalytic core [active] 465515004224 Protein of unknown function (DUF3090); Region: DUF3090; cl12832 465515004225 Phosphoinositide 3-kinase (PI3K)-like family, catalytic domain; The PI3K-like catalytic domain family is part of a larger superfamily that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (...; Region: PI3Kc_like; cl00119 465515004226 G:T/U mismatch specific DNA glcosylase (MUG); Region: UDG_F2_MUG; cd10028 465515004227 active site 465515004228 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 465515004229 Phd_YefM; Region: PhdYeFM; cl09153 465515004230 Transposase, Mutator family; Region: Transposase_mut; pfam00872 465515004231 MULE transposase domain; Region: MULE; pfam10551 465515004232 Transposase, Mutator family; Region: Transposase_mut; pfam00872 465515004233 MULE transposase domain; Region: MULE; pfam10551 465515004234 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl00556 465515004235 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 465515004236 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 465515004237 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 465515004238 Transposase; Region: DDE_Tnp_ISL3; pfam01610 465515004239 Transposase, Mutator family; Region: Transposase_mut; pfam00872 465515004240 MULE transposase domain; Region: MULE; pfam10551 465515004241 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 465515004242 catalytic residues [active] 465515004243 catalytic nucleophile [active] 465515004244 Presynaptic Site I dimer interface [polypeptide binding]; other site 465515004245 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 465515004246 Synaptic Flat tetramer interface [polypeptide binding]; other site 465515004247 Synaptic Site I dimer interface [polypeptide binding]; other site 465515004248 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 465515004249 DNA-binding interface [nucleotide binding]; DNA binding site 465515004250 GTP-binding protein YchF; Reviewed; Region: PRK09601 465515004251 YchF subfamily. YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated...; Region: YchF; cd01900 465515004252 G1 box; other site 465515004253 GTP/Mg2+ binding site [chemical binding]; other site 465515004254 Switch I region; other site 465515004255 G2 box; other site 465515004256 Switch II region; other site 465515004257 G3 box; other site 465515004258 G4 box; other site 465515004259 G5 box; other site 465515004260 GTPase, and SpoT/RelA proteins where it occurs, is structurally similar to ubiquitin. TGS is a small domain of about 50 amino acid residues with a predominantly beta-sheet structure. There is no direct information on the function of the TGS domain, but...; Region: TGS; cl03735 465515004261 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are...; Region: ACD_sHsps-like; cd06464 465515004262 putative dimer interface [polypeptide binding]; other site 465515004263 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 465515004264 daunorubicin resistance ABC transporter ATP-binding subunit; Region: drrA; TIGR01188 465515004265 Walker A/P-loop; other site 465515004266 ATP binding site [chemical binding]; other site 465515004267 Q-loop/lid; other site 465515004268 ABC transporter signature motif; other site 465515004269 Walker B; other site 465515004270 D-loop; other site 465515004271 H-loop/switch region; other site 465515004272 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 465515004273 Histidine kinase; Region: HisKA_3; pfam07730 465515004274 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 465515004275 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 465515004276 active site 465515004277 phosphorylation site [posttranslational modification] 465515004278 intermolecular recognition site; other site 465515004279 dimerization interface [polypeptide binding]; other site 465515004280 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...; Region: LuxR_C_like; cd06170 465515004281 DNA binding residues [nucleotide binding] 465515004282 dimerization interface [polypeptide binding]; other site 465515004283 Macro domain, Appr-1'-pase_like family. The macro domain is a high-affinity ADP-ribose binding module found in a variety of proteins as a stand-alone domain or in combination with other domains like in histone macroH2A and some PARPs (poly ADP-ribose...; Region: Macro_Appr_pase_like; cd02908 465515004284 putative ADP-ribose binding site [chemical binding]; other site 465515004285 putative active site [active] 465515004286 RmuC family; Region: RmuC; pfam02646 465515004287 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 465515004288 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; cl09110 465515004289 transmembrane helices; other site 465515004290 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; cl09110 465515004291 LytB protein; Region: LYTB; cl00507 465515004292 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 465515004293 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 465515004294 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 single-strand-...; Region: ExoVII_LU_OBF; cd04489 465515004295 generic binding surface II; other site 465515004296 generic binding surface I; other site 465515004297 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 465515004298 A type 1 glutamine amidotransferase (GATase1)-like domain found in PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_like; cd03134 465515004299 proposed catalytic triad [active] 465515004300 conserved cys residue [active] 465515004301 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 465515004302 tyrosine aminotransferase, eukaryotic; Region: tyr_amTase_E; TIGR01264 465515004303 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 465515004304 pyridoxal 5'-phosphate binding site [chemical binding]; other site 465515004305 homodimer interface [polypeptide binding]; other site 465515004306 catalytic residue [active] 465515004307 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl15260 465515004308 Contains a crystal structure of the Nudix hydrolase from Enterococcus faecalis, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X...; Region: Nudix_Hydrolase_25; cd04684 465515004309 nudix motif; other site 465515004310 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 465515004311 substrate binding site [chemical binding]; other site 465515004312 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 465515004313 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 465515004314 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 465515004315 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 465515004316 GMP synthase; Reviewed; Region: guaA; PRK00074 465515004317 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 465515004318 AMP/PPi binding site [chemical binding]; other site 465515004319 candidate oxyanion hole; other site 465515004320 catalytic triad [active] 465515004321 potential glutamine specificity residues [chemical binding]; other site 465515004322 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 465515004323 ATP Binding subdomain [chemical binding]; other site 465515004324 Ligand Binding sites [chemical binding]; other site 465515004325 Dimerization subdomain; other site 465515004326 Domain of unknown function (DUF3817); Region: DUF3817; cl14844 465515004327 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 465515004328 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK08649 465515004329 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 465515004330 phosphate binding site [ion binding]; other site 465515004331 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 465515004332 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 465515004333 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 465515004334 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...; Region: IMPDH; cd00381 465515004335 active site 465515004336 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 465515004337 BCCT family transporter; Region: BCCT; cl00569 465515004338 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 465515004339 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 465515004340 ring oligomerisation interface [polypeptide binding]; other site 465515004341 ATP/Mg binding site [chemical binding]; other site 465515004342 stacking interactions; other site 465515004343 hinge regions; other site 465515004344 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...; Region: cpn10; cd00320 465515004345 oligomerisation interface [polypeptide binding]; other site 465515004346 mobile loop; other site 465515004347 roof hairpin; other site 465515004348 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 465515004349 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 465515004350 Walker A/P-loop; other site 465515004351 ATP binding site [chemical binding]; other site 465515004352 Q-loop/lid; other site 465515004353 ABC transporter signature motif; other site 465515004354 Walker B; other site 465515004355 D-loop; other site 465515004356 H-loop/switch region; other site 465515004357 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...; Region: TM_ABC_iron-siderophores_like; cd06550 465515004358 dimer interface [polypeptide binding]; other site 465515004359 putative PBP binding regions; other site 465515004360 ABC-ATPase subunit interface; other site 465515004361 ABC-type enterochelin transport system, permease component [Inorganic ion transport and metabolism]; Region: CeuC; COG4605 465515004362 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...; Region: TM_ABC_iron-siderophores_like; cd06550 465515004363 ABC-ATPase subunit interface; other site 465515004364 dimer interface [polypeptide binding]; other site 465515004365 putative PBP binding regions; other site 465515004366 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...; Region: TroA-like; cl00262 465515004367 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 465515004368 intersubunit interface [polypeptide binding]; other site 465515004369 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 465515004370 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 465515004371 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 465515004372 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 465515004373 NAD binding site [chemical binding]; other site 465515004374 catalytic Zn binding site [ion binding]; other site 465515004375 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 465515004376 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515004377 NAD(P) binding site [chemical binding]; other site 465515004378 active site 465515004379 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...; Region: PBPb; cl15306 465515004380 Cation efflux family; Region: Cation_efflux; cl00316 465515004381 UGMP family protein; Validated; Region: PRK09604 465515004382 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 465515004383 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 465515004384 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 465515004385 Uncharacterised P-loop hydrolase UPF0079; Region: UPF0079; cl00520 465515004386 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 465515004387 alanine racemase; Reviewed; Region: alr; PRK00053 465515004388 active site 465515004389 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 465515004390 dimer interface [polypeptide binding]; other site 465515004391 substrate binding site [chemical binding]; other site 465515004392 catalytic residues [active] 465515004393 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 465515004394 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 465515004395 putative substrate binding site [chemical binding]; other site 465515004396 putative ATP binding site [chemical binding]; other site 465515004397 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 465515004398 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; cl00630 465515004399 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 465515004400 Glycogen_debranching_enzyme N-terminal domain. Glycogen debranching enzymes have both 4-alpha-glucanotransferase and amylo-1,6-glucosidase activities. As a transferase it transfers a segment of a 1,4-alpha-D-glucan to a new 4-position in an acceptor...; Region: Glycogen_debranching_enzyme_N_term; cd02856 465515004401 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 465515004402 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 465515004403 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...; Region: GFAT; cd00714 465515004404 glutaminase active site [active] 465515004405 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 465515004406 dimer interface [polypeptide binding]; other site 465515004407 active site 465515004408 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 465515004409 dimer interface [polypeptide binding]; other site 465515004410 active site 465515004411 pantothenate kinase; Provisional; Region: PRK05439 465515004412 Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway. The reaction carried out by this enzyme is a key regulatory point in...; Region: PanK; cd02025 465515004413 ATP-binding site [chemical binding]; other site 465515004414 CoA-binding site [chemical binding]; other site 465515004415 Mg2+-binding site [ion binding]; other site 465515004416 D-alanyl-D-alanine carboxypeptidase; Region: VanY; cl00813 465515004417 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 465515004418 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14318 465515004419 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 UDP-N-...; Region: GlmM; cd05802 465515004420 active site 465515004421 substrate binding site [chemical binding]; other site 465515004422 metal binding site [ion binding]; metal-binding site 465515004423 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 465515004424 amidase catalytic site [active] 465515004425 Zn binding residues [ion binding]; other site 465515004426 substrate binding site [chemical binding]; other site 465515004427 Uncharacterized conserved protein [Function unknown]; Region: COG2326 465515004428 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 465515004429 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 465515004430 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 465515004431 23S rRNA interface [nucleotide binding]; other site 465515004432 L3 interface [polypeptide binding]; other site 465515004433 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 465515004434 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 465515004435 dimerization interface 3.5A [polypeptide binding]; other site 465515004436 active site 465515004437 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 465515004438 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 465515004439 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 465515004440 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 465515004441 alphaNTD homodimer interface [polypeptide binding]; other site 465515004442 alphaNTD - beta interaction site [polypeptide binding]; other site 465515004443 alphaNTD - beta' interaction site [polypeptide binding]; other site 465515004444 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 465515004445 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 465515004446 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 465515004447 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 465515004448 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 465515004449 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 465515004450 rRNA binding site [nucleotide binding]; other site 465515004451 predicted 30S ribosome binding site; other site 465515004452 methionine aminopeptidase; Reviewed; Region: PRK07281 465515004453 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 465515004454 active site 465515004455 adenylate kinase; Reviewed; Region: adk; PRK00279 465515004456 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 465515004457 AMP-binding site [chemical binding]; other site 465515004458 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 465515004459 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 465515004460 SecY translocase; Region: SecY; pfam00344 465515004461 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 465515004462 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...; Region: Ribosomal_L30; cd01658 465515004463 23S rRNA binding site [nucleotide binding]; other site 465515004464 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 465515004465 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 465515004466 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 465515004467 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 465515004468 5S rRNA interface [nucleotide binding]; other site 465515004469 L27 interface [polypeptide binding]; other site 465515004470 23S rRNA interface [nucleotide binding]; other site 465515004471 L5 interface [polypeptide binding]; other site 465515004472 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 465515004473 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 465515004474 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 465515004475 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 465515004476 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 465515004477 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 465515004478 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 465515004479 KOW motif; Region: KOW; cl00354 465515004480 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 465515004481 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 465515004482 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...; Region: Ribosomal_L29_HIP; cd00427 465515004483 L23 interface [polypeptide binding]; other site 465515004484 signal recognition particle (SRP54) interaction site; other site 465515004485 trigger factor interaction site; other site 465515004486 23S rRNA interface [nucleotide binding]; other site 465515004487 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 465515004488 23S rRNA interface [nucleotide binding]; other site 465515004489 5S rRNA interface [nucleotide binding]; other site 465515004490 putative antibiotic binding site [chemical binding]; other site 465515004491 L25 interface [polypeptide binding]; other site 465515004492 L27 interface [polypeptide binding]; other site 465515004493 ribosomal protein S3, bacterial type; Region: rpsC_bact; TIGR01009 465515004494 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...; Region: 30S_S3_KH; cd02412 465515004495 G-X-X-G motif; other site 465515004496 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 465515004497 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 465515004498 putative translocon binding site; other site 465515004499 protein-rRNA interface [nucleotide binding]; other site 465515004500 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 465515004501 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 465515004502 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 465515004503 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 465515004504 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 465515004505 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 465515004506 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 465515004507 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 465515004508 Domain of unknown function (DUF3817); Region: DUF3817; cl14844 465515004509 elongation factor Tu; Reviewed; Region: PRK00049 465515004510 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors; Region: EF_Tu; cd01884 465515004511 G1 box; other site 465515004512 GEF interaction site [polypeptide binding]; other site 465515004513 GTP/Mg2+ binding site [chemical binding]; other site 465515004514 Switch I region; other site 465515004515 G2 box; other site 465515004516 G3 box; other site 465515004517 Switch II region; other site 465515004518 G4 box; other site 465515004519 G5 box; other site 465515004520 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 465515004521 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 465515004522 Antibiotic Binding Site [chemical binding]; other site 465515004523 elongation factor G; Reviewed; Region: PRK00007 465515004524 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved...; Region: EF-G; cd01886 465515004525 G1 box; other site 465515004526 putative GEF interaction site [polypeptide binding]; other site 465515004527 GTP/Mg2+ binding site [chemical binding]; other site 465515004528 Switch I region; other site 465515004529 G2 box; other site 465515004530 G3 box; other site 465515004531 Switch II region; other site 465515004532 G4 box; other site 465515004533 G5 box; other site 465515004534 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...; Region: EFG_mtEFG_II; cd04088 465515004535 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...; Region: EFG_mtEFG1_IV; cd01434 465515004536 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...; Region: EFG_mtEFG_C; cd03713 465515004537 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 465515004538 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 465515004539 S17 interaction site [polypeptide binding]; other site 465515004540 S8 interaction site; other site 465515004541 16S rRNA interaction site [nucleotide binding]; other site 465515004542 streptomycin interaction site [chemical binding]; other site 465515004543 23S rRNA interaction site [nucleotide binding]; other site 465515004544 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 465515004545 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 465515004546 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 465515004547 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 465515004548 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 465515004549 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 465515004550 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 465515004551 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 465515004552 G-loop; other site 465515004553 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 465515004554 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 465515004555 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 465515004556 DNA binding site [nucleotide binding] 465515004557 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 465515004558 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 465515004559 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl04591 465515004560 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 465515004561 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 465515004562 RPB10 interaction site [polypeptide binding]; other site 465515004563 RPB1 interaction site [polypeptide binding]; other site 465515004564 RPB11 interaction site [polypeptide binding]; other site 465515004565 RPB3 interaction site [polypeptide binding]; other site 465515004566 RPB12 interaction site [polypeptide binding]; other site 465515004567 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 465515004568 L11 interface [polypeptide binding]; other site 465515004569 putative EF-Tu interaction site [polypeptide binding]; other site 465515004570 putative EF-G interaction site [polypeptide binding]; other site 465515004571 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...; Region: Ribosomal_L10; cd05797 465515004572 23S rRNA interface [nucleotide binding]; other site 465515004573 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 465515004574 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...; Region: Ribosomal_L1; cd00403 465515004575 mRNA/rRNA interface [nucleotide binding]; other site 465515004576 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 465515004577 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 465515004578 23S rRNA interface [nucleotide binding]; other site 465515004579 putative thiostrepton binding site; other site 465515004580 L7/L12 interface [polypeptide binding]; other site 465515004581 L25 interface [polypeptide binding]; other site 465515004582 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 465515004583 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 465515004584 putative homodimer interface [polypeptide binding]; other site 465515004585 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 465515004586 hypothetical protein; Validated; Region: PRK07682 465515004587 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 465515004588 pyridoxal 5'-phosphate binding site [chemical binding]; other site 465515004589 homodimer interface [polypeptide binding]; other site 465515004590 catalytic residue [active] 465515004591 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 465515004592 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...; Region: LuxR_C_like; cd06170 465515004593 DNA binding residues [nucleotide binding] 465515004594 dimerization interface [polypeptide binding]; other site 465515004595 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 465515004596 6-phosphofructokinase; Provisional; Region: PRK03202 465515004597 active site 465515004598 ADP/pyrophosphate binding site [chemical binding]; other site 465515004599 dimerization interface [polypeptide binding]; other site 465515004600 allosteric effector site; other site 465515004601 fructose-1,6-bisphosphate binding site; other site 465515004602 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 465515004603 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 465515004604 nitrobindin heme-binding domain; Region: nitrobindin; cd07828 465515004605 heme-binding site [chemical binding]; other site 465515004606 mycothiol synthase; Region: mycothiol_MshD; TIGR03448 465515004607 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 465515004608 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 465515004609 active site 465515004610 Ap6A binding site [chemical binding]; other site 465515004611 nudix motif; other site 465515004612 metal binding site [ion binding]; metal-binding site 465515004613 Histidine phosphatase superfamily (branch 1); Region: His_Phos_1; pfam00300 465515004614 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cl11399 465515004615 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 465515004616 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 465515004617 dimerization interface [polypeptide binding]; other site 465515004618 active site 465515004619 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 5,10-...; Region: DHFR; cd00209 465515004620 folate binding site [chemical binding]; other site 465515004621 NADP+ binding site [chemical binding]; other site 465515004622 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515004623 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 465515004624 Semialdehyde dehydrogenase, dimerisation domain; Region: Semialdhyde_dhC; pfam02774 465515004625 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13903 465515004626 FAD binding domain; Region: FAD_binding_4; pfam01565 465515004627 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 465515004628 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 465515004629 active site 2 [active] 465515004630 active site 1 [active] 465515004631 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 465515004632 active site 465515004633 catalytic site [active] 465515004634 helicase 45; Provisional; Region: PTZ00424 465515004635 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 465515004636 ATP binding site [chemical binding]; other site 465515004637 Mg++ binding site [ion binding]; other site 465515004638 motif III; other site 465515004639 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 465515004640 nucleotide binding region [chemical binding]; other site 465515004641 ATP-binding site [chemical binding]; other site 465515004642 DbpA RNA binding domain; Region: DbpA; pfam03880 465515004643 Imidazolonepropionase and related amidohydrolases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: HutI; COG1228 465515004644 Metallo-dependent hydrolases, subgroup C is part of the superfamily of metallo-dependent hydrolases, 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...; Region: Met_dep_hydrolase_C; cd01309 465515004645 active site 465515004646 cystathionine gamma-synthase; Provisional; Region: PRK07811 465515004647 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 465515004648 homodimer interface [polypeptide binding]; other site 465515004649 substrate-cofactor binding pocket; other site 465515004650 pyridoxal 5'-phosphate binding site [chemical binding]; other site 465515004651 catalytic residue [active] 465515004652 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 465515004653 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 465515004654 dimer interface [polypeptide binding]; other site 465515004655 pyridoxal 5'-phosphate binding site [chemical binding]; other site 465515004656 catalytic residue [active] 465515004657 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the pyridoxal-phosphate (PALP) dependent enzyme domain upstream. The vitamin B6 complex comprises pyridoxine, pyridoxal, and pyridoxamine, as...; Region: CBS_pair_PALP_assoc2; cd04609 465515004658 FOG: CBS domain [General function prediction only]; Region: COG0517 465515004659 3-methyladenine DNA glycosylase/8-oxoguanine DNA glycosylase [DNA replication, recombination, and repair]; Region: AlkA; COG0122 465515004660 AMP-binding domain protein; Validated; Region: PRK08315 465515004661 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 465515004662 Protein of unknown function (DUF520); Region: DUF520; cl00723 465515004663 enterobactin exporter EntS; Provisional; Region: PRK10489 465515004664 ferredoxin-NADP+ reductase; Region: PLN02852 465515004665 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515004666 Predicted permeases [General function prediction only]; Region: RarD; COG2962 465515004667 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the...; Region: HIT_like; cl00228 465515004668 nucleotide binding site/active site [active] 465515004669 HIT family signature motif; other site 465515004670 catalytic residue [active] 465515004671 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 465515004672 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 465515004673 substrate binding pocket [chemical binding]; other site 465515004674 chain length determination region; other site 465515004675 substrate-Mg2+ binding site; other site 465515004676 catalytic residues [active] 465515004677 aspartate-rich region 1; other site 465515004678 active site lid residues [active] 465515004679 aspartate-rich region 2; other site 465515004680 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 465515004681 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 465515004682 dimer interface [polypeptide binding]; other site 465515004683 tetramer interface [polypeptide binding]; other site 465515004684 PYR/PP interface [polypeptide binding]; other site 465515004685 TPP binding site [chemical binding]; other site 465515004686 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylic-acid synthase; Region: menD; TIGR00173 465515004687 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 role in the menaquinone biosynthetic pathway, converting...; Region: TPP_SHCHC_synthase; cd02009 465515004688 TPP-binding site; other site 465515004689 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 465515004690 O-succinylbenzoate synthase; Provisional; Region: PRK02901 465515004691 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 465515004692 metal binding site [ion binding]; metal-binding site 465515004693 substrate binding pocket [chemical binding]; other site 465515004694 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 465515004695 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 465515004696 E3 interaction surface; other site 465515004697 lipoyl attachment site [posttranslational modification]; other site 465515004698 e3 binding domain; Region: E3_binding; pfam02817 465515004699 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 465515004700 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 465515004701 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 465515004702 TPP binding site [chemical binding]; other site 465515004703 alpha subunit interface [polypeptide binding]; other site 465515004704 heterodimer interface [polypeptide binding]; other site 465515004705 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 465515004706 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 465515004707 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 465515004708 tetramer interface [polypeptide binding]; other site 465515004709 TPP-binding site [chemical binding]; other site 465515004710 heterodimer interface [polypeptide binding]; other site 465515004711 phosphorylation loop region [posttranslational modification] 465515004712 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 465515004713 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 465515004714 Major Facilitator Superfamily; Region: MFS_1; pfam07690 465515004715 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 465515004716 Sulfate transporter family; Region: Sulfate_transp; cl00967 465515004717 Permease family; Region: Xan_ur_permease; pfam00860 465515004718 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 465515004719 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 465515004720 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 465515004721 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 465515004722 glucose-6-phosphate 1-dehydrogenase; Provisional; Region: PRK12853 465515004723 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 465515004724 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 465515004725 naphthoate synthase; Validated; Region: PRK08321 465515004726 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 465515004727 substrate binding site [chemical binding]; other site 465515004728 oxyanion hole (OAH) forming residues; other site 465515004729 trimer interface [polypeptide binding]; other site 465515004730 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 465515004731 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; cl09110 465515004732 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; cl09110 465515004733 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 465515004734 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 465515004735 1,4-dihydroxy-2-naphthoate octaprenyltransferase [Coenzyme metabolism]; Region: MenA; COG1575 465515004736 UbiA prenyltransferase family; Region: UbiA; cl00337 465515004737 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 465515004738 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 465515004739 ResB-like family; Region: ResB; pfam05140 465515004740 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 465515004741 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing...; Region: TlpA_like_family; cd02966 465515004742 catalytic residues [active] 465515004743 Histidine phosphatase superfamily (branch 1); Region: His_Phos_1; pfam00300 465515004744 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 465515004745 catalytic core [active] 465515004746 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 465515004747 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 465515004748 Histone deacetylase domain; Region: Hist_deacetyl; cl02986 465515004749 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 465515004750 Cation transport protein; Region: TrkH; cl10514 465515004751 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 465515004752 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515004753 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; cl09110 465515004754 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 465515004755 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515004756 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 D-arabino-6-...; Region: AP2Ec; cl12060 465515004757 AP (apurinic/apyrimidinic) site pocket; other site 465515004758 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 465515004759 Metal-binding active site; metal-binding site 465515004760 exopolyphosphatase; Region: exo_poly_only; TIGR03706 465515004761 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 465515004762 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 465515004763 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...; Region: TOPRIM_TopoIA_TopoI; cd03363 465515004764 active site 465515004765 interdomain interaction site; other site 465515004766 putative metal-binding site [ion binding]; other site 465515004767 nucleotide binding site [chemical binding]; other site 465515004768 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...; Region: TOP1Ac; cl11986 465515004769 domain I; other site 465515004770 phosphate binding site [ion binding]; other site 465515004771 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...; Region: TOP1Ac; cd00186 465515004772 domain II; other site 465515004773 domain III; other site 465515004774 nucleotide binding site [chemical binding]; other site 465515004775 DNA binding groove [nucleotide binding] 465515004776 catalytic site [active] 465515004777 domain IV; other site 465515004778 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 465515004779 putative rhodanese-related sulfurtransferase; Provisional; Region: PRK00142 465515004780 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 465515004781 active site residue [active] 465515004782 Transposase; Region: DDE_Tnp_ISL3; pfam01610 465515004783 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 465515004784 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 465515004785 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 465515004786 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 465515004787 ATP binding site [chemical binding]; other site 465515004788 putative Mg++ binding site [ion binding]; other site 465515004789 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 465515004790 nucleotide binding region [chemical binding]; other site 465515004791 ATP-binding site [chemical binding]; other site 465515004792 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 465515004793 Flp pilus assembly protein, ATPase CpaF [Intracellular trafficking and secretion]; Region: CpaF; COG4962 465515004794 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial...; Region: VirB11-like_ATPase; cd01130 465515004795 Walker A motif; other site 465515004796 hexamer interface [polypeptide binding]; other site 465515004797 ATP binding site [chemical binding]; other site 465515004798 Walker B motif; other site 465515004799 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 465515004800 putative active site [active] 465515004801 putative CoA binding site [chemical binding]; other site 465515004802 nudix motif; other site 465515004803 metal binding site [ion binding]; metal-binding site 465515004804 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 465515004805 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 465515004806 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 465515004807 minor groove reading motif; other site 465515004808 helix-hairpin-helix signature motif; other site 465515004809 substrate binding pocket [chemical binding]; other site 465515004810 active site 465515004811 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 465515004812 acetyl-CoA synthetase; Provisional; Region: PRK00174 465515004813 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 465515004814 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 465515004815 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 465515004816 DNA-binding site [nucleotide binding]; DNA binding site 465515004817 Sodium:neurotransmitter symporter family; Region: SNF; cl11976 465515004818 Trypsin-like serine proteases, typically periplasmic, contain C-terminal PDZ domain [Posttranslational modification, protein turnover, chaperones]; Region: DegQ; COG0265 465515004819 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 465515004820 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 465515004821 ligand binding site [chemical binding]; other site 465515004822 flexible hinge region; other site 465515004823 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 465515004824 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 465515004825 homotrimer interaction site [polypeptide binding]; other site 465515004826 putative active site [active] 465515004827 Integrase core domain; Region: rve; cl01316 465515004828 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 465515004829 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 465515004830 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 465515004831 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 465515004832 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 465515004833 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 465515004834 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 465515004835 active site 465515004836 phosphorylation site [posttranslational modification] 465515004837 intermolecular recognition site; other site 465515004838 dimerization interface [polypeptide binding]; other site 465515004839 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...; Region: trans_reg_C; cd00383 465515004840 DNA binding site [nucleotide binding] 465515004841 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 connected by an extended linker. The...; Region: HAMP; cd06225 465515004842 dimerization interface [polypeptide binding]; other site 465515004843 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 trans-...; Region: HisKA; cd00082 465515004844 dimer interface [polypeptide binding]; other site 465515004845 phosphorylation site [posttranslational modification] 465515004846 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 465515004847 ATP binding site [chemical binding]; other site 465515004848 Mg2+ binding site [ion binding]; other site 465515004849 G-X-G motif; other site 465515004850 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 465515004851 metal-binding site [ion binding] 465515004852 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 465515004853 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 465515004854 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; cl11391 465515004855 Domain of unknown function (DUF305); Region: DUF305; pfam03713 465515004856 Domain of unknown function (DUF305); Region: DUF305; pfam03713 465515004857 glyceraldehyde-3-phosphate dehydrogenase; Provisional; Region: PRK04207 465515004858 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl15267 465515004859 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 465515004860 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 465515004861 catalytic residue [active] 465515004862 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 465515004863 dimerization interface [polypeptide binding]; other site 465515004864 Protein of unknown function (DUF3105); Region: DUF3105; pfam11303 465515004865 Transposase, Mutator family; Region: Transposase_mut; pfam00872 465515004866 MULE transposase domain; Region: MULE; pfam10551 465515004867 Transglycosylase; Region: Transgly; cl07896 465515004868 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 465515004869 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 465515004870 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 465515004871 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 465515004872 putative active site [active] 465515004873 putative metal binding site [ion binding]; other site 465515004874 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 465515004875 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 465515004876 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 465515004877 Walker A/P-loop; other site 465515004878 ATP binding site [chemical binding]; other site 465515004879 Q-loop/lid; other site 465515004880 ABC transporter signature motif; other site 465515004881 Walker B; other site 465515004882 D-loop; other site 465515004883 H-loop/switch region; other site 465515004884 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 465515004885 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 465515004886 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 465515004887 Walker A/P-loop; other site 465515004888 ATP binding site [chemical binding]; other site 465515004889 Q-loop/lid; other site 465515004890 ABC transporter signature motif; other site 465515004891 Walker B; other site 465515004892 D-loop; other site 465515004893 H-loop/switch region; other site 465515004894 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 465515004895 ATP binding site [chemical binding]; other site 465515004896 active site 465515004897 substrate binding site [chemical binding]; other site 465515004898 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 465515004899 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 465515004900 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 465515004901 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 465515004902 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 465515004903 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 465515004904 active site 465515004905 phosphorylation site [posttranslational modification] 465515004906 intermolecular recognition site; other site 465515004907 dimerization interface [polypeptide binding]; other site 465515004908 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...; Region: LuxR_C_like; cd06170 465515004909 dimerization interface [polypeptide binding]; other site 465515004910 DNA binding residues [nucleotide binding] 465515004911 Histidine kinase; Region: HisKA_3; pfam07730 465515004912 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 465515004913 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 465515004914 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 465515004915 Walker A/P-loop; other site 465515004916 ATP binding site [chemical binding]; other site 465515004917 Q-loop/lid; other site 465515004918 ABC transporter signature motif; other site 465515004919 Walker B; other site 465515004920 D-loop; other site 465515004921 H-loop/switch region; other site 465515004922 L-asparaginase II; Region: Asparaginase_II; cl01842 465515004923 amidophosphoribosyltransferase; Provisional; Region: PRK07847 465515004924 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 465515004925 active site 465515004926 tetramer interface [polypeptide binding]; other site 465515004927 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 465515004928 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 465515004929 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...; Region: PurM; cd02196 465515004930 dimerization interface [polypeptide binding]; other site 465515004931 putative ATP binding site [chemical binding]; other site 465515004932 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; cl00195 465515004933 NAD-dependent deacetylase; Provisional; Region: PRK05333 465515004934 Protein of unknown function (DUF3073); Region: DUF3073; pfam11273 465515004935 M28, and M42; Region: Zinc_peptidase_like; cl14876 465515004936 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 465515004937 Clp amino terminal domain; Region: Clp_N; pfam02861 465515004938 Clp amino terminal domain; Region: Clp_N; pfam02861 465515004939 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...; Region: AAA; cd00009 465515004940 Walker A motif; other site 465515004941 ATP binding site [chemical binding]; other site 465515004942 Walker B motif; other site 465515004943 arginine finger; other site 465515004944 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...; Region: AAA; cd00009 465515004945 Walker A motif; other site 465515004946 ATP binding site [chemical binding]; other site 465515004947 Walker B motif; other site 465515004948 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 465515004949 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 465515004950 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 465515004951 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...; Region: PBPb; cd00134 465515004952 substrate binding pocket [chemical binding]; other site 465515004953 membrane-bound complex binding site; other site 465515004954 hinge residues; other site 465515004955 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 465515004956 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...; Region: TM_PBP2; cd06261 465515004957 dimer interface [polypeptide binding]; other site 465515004958 conserved gate region; other site 465515004959 putative PBP binding loops; other site 465515004960 ABC-ATPase subunit interface; other site 465515004961 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 465515004962 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; Region: ABC_HisP_GlnQ_permeases; cd03262 465515004963 Walker A/P-loop; other site 465515004964 ATP binding site [chemical binding]; other site 465515004965 Q-loop/lid; other site 465515004966 ABC transporter signature motif; other site 465515004967 Walker B; other site 465515004968 D-loop; other site 465515004969 H-loop/switch region; other site 465515004970 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 465515004971 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 465515004972 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 465515004973 DNA binding residues [nucleotide binding] 465515004974 putative dimer interface [polypeptide binding]; other site 465515004975 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 465515004976 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...; Region: DnaJ; cd06257 465515004977 HSP70 interaction site [polypeptide binding]; other site 465515004978 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 465515004979 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 465515004980 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 465515004981 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 465515004982 dimer interface [polypeptide binding]; other site 465515004983 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 465515004984 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 465515004985 Ferritin-like domain; Region: Ferritin; pfam00210 465515004986 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 465515004987 dimerization interface [polypeptide binding]; other site 465515004988 DPS ferroxidase diiron center [ion binding]; other site 465515004989 ion pore; other site 465515004990 Transport protein; Region: actII; TIGR00833 465515004991 MMPL family; Region: MMPL; pfam03176 465515004992 Transport protein; Region: actII; TIGR00833 465515004993 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 465515004994 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 465515004995 chromosome segregation protein; Provisional; Region: PRK02224 465515004996 MMPL family; Region: MMPL; pfam03176 465515004997 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 465515004998 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 465515004999 substrate-cofactor binding pocket; other site 465515005000 pyridoxal 5'-phosphate binding site [chemical binding]; other site 465515005001 catalytic residue [active] 465515005002 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 465515005003 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 465515005004 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 465515005005 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12665 465515005006 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 465515005007 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 465515005008 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12644 465515005009 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 465515005010 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 465515005011 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 465515005012 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 465515005013 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 465515005014 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 465515005015 trimer interface [polypeptide binding]; other site 465515005016 active site 465515005017 F420-0:Gamma-glutamyl ligase; Region: F420_ligase; cl00644 465515005018 Putative regulatory, ligand-binding protein related to C-terminal domains of K+ channels [Inorganic ion transport and metabolism]; Region: COG0490 465515005019 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 465515005020 Uncharacterized protein conserved in bacteria (DUF2087); Region: DUF2087; cl01589 465515005021 Membrane transport protein; Region: Mem_trans; cl09117 465515005022 diaminopimelate dehydrogenase; Region: DAP-DH; TIGR01921 465515005023 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 465515005024 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 465515005025 haloacid dehalogenase-like hydrolase family protein; Region: PLN02919 465515005026 Copper resistance protein D; Region: CopD; cl00563 465515005027 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; cl09173 465515005028 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 465515005029 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 465515005030 Protein of unknown function (DUF461); Region: DUF461; cl01071 465515005031 Copper resistance protein CopC; Region: CopC; cl01012 465515005032 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 higher-...; Region: HU_IHF; cd00591 465515005033 IHF dimer interface [polypeptide binding]; other site 465515005034 IHF - DNA interface [nucleotide binding]; other site 465515005035 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 465515005036 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 465515005037 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 465515005038 CCC1-related family of proteins; Region: CCC1_like; cl00278 465515005039 Natural resistance-associated macrophage protein; Region: Nramp; cl00836 465515005040 Protein of unknown function (DUF1445); Region: DUF1445; cl01790 465515005041 Transcriptional regulators [Transcription]; Region: GntR; COG1802 465515005042 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 465515005043 DNA-binding site [nucleotide binding]; DNA binding site 465515005044 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 465515005045 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 465515005046 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 465515005047 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 465515005048 oxaloacetate decarboxylase; Provisional; Region: PRK14040 465515005049 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 465515005050 carboxyltransferase (CT) interaction site; other site 465515005051 biotinylation site [posttranslational modification]; other site 465515005052 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 465515005053 Allophanate hydrolase subunit 1; Region: AHS1; smart00796 465515005054 Allophanate hydrolase subunit 2; Region: AHS2; cl00865 465515005055 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 465515005056 LamB/YcsF family; Region: LamB_YcsF; cl00664 465515005057 Predicted glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: ECM4; COG0435 465515005058 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 465515005059 C-terminal, alpha helical domain of Class Omega-like Glutathione S-transferases; Region: GST_C_Omega_like; cd03190 465515005060 putative dimer interface [polypeptide binding]; other site 465515005061 N-terminal domain interface [polypeptide binding]; other site 465515005062 putative substrate binding pocket (H-site) [chemical binding]; other site 465515005063 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 465515005064 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 465515005065 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 oxidation of L-histidinol to L-...; Region: Histidinol_dh; cd06572 465515005066 NAD binding site [chemical binding]; other site 465515005067 dimerization interface [polypeptide binding]; other site 465515005068 product binding site; other site 465515005069 substrate binding site [chemical binding]; other site 465515005070 zinc binding site [ion binding]; other site 465515005071 catalytic residues [active] 465515005072 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 465515005073 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 465515005074 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 465515005075 Walker A/P-loop; other site 465515005076 ATP binding site [chemical binding]; other site 465515005077 Q-loop/lid; other site 465515005078 ABC transporter signature motif; other site 465515005079 Walker B; other site 465515005080 D-loop; other site 465515005081 H-loop/switch region; other site 465515005082 Flavin Reductases; Region: FlaRed; cl00801 465515005083 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 465515005084 DNA-binding site [nucleotide binding]; DNA binding site 465515005085 RNA-binding motif; other site 465515005086 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 465515005087 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...; Region: GltS_FMN; cd02808 465515005088 active site 465515005089 FMN binding site [chemical binding]; other site 465515005090 substrate binding site [chemical binding]; other site 465515005091 3Fe-4S cluster binding site [ion binding]; other site 465515005092 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...; Region: 4HBT; cd00586 465515005093 active site 465515005094 Proline dehydrogenase; Region: Pro_dh; cl03282 465515005095 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 465515005096 NAD(P) binding site [chemical binding]; other site 465515005097 catalytic residues [active] 465515005098 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 465515005099 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 465515005100 Domain of unknown function DUF20; Region: UPF0118; cl00465 465515005101 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 465515005102 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 465515005103 thiamine transporter membrane protein; Reviewed; Region: thiP; PRK09433 465515005104 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...; Region: TM_PBP2; cd06261 465515005105 dimer interface [polypeptide binding]; other site 465515005106 conserved gate region; other site 465515005107 putative PBP binding loops; other site 465515005108 ABC-ATPase subunit interface; other site 465515005109 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...; Region: TM_PBP2; cl00427 465515005110 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 465515005111 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 465515005112 Walker A/P-loop; other site 465515005113 ATP binding site [chemical binding]; other site 465515005114 Q-loop/lid; other site 465515005115 ABC transporter signature motif; other site 465515005116 Walker B; other site 465515005117 D-loop; other site 465515005118 H-loop/switch region; other site 465515005119 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 465515005120 RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner; Region: RNase_H; cd06222 465515005121 RNA/DNA hybrid binding site [nucleotide binding]; other site 465515005122 active site 465515005123 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 465515005124 acetyl-CoA acetyltransferase; Provisional; Region: PRK07801 465515005125 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 465515005126 dimer interface [polypeptide binding]; other site 465515005127 active site 465515005128 acyl-CoA synthetase; Validated; Region: PRK08316 465515005129 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 465515005130 acyl-coenzyme A oxidase; Region: PLN02526 465515005131 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 465515005132 active site 465515005133 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 465515005134 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 465515005135 substrate binding site [chemical binding]; other site 465515005136 oxyanion hole (OAH) forming residues; other site 465515005137 trimer interface [polypeptide binding]; other site 465515005138 RNA polymerase sigma factor; Provisional; Region: PRK05901 465515005139 Protein of unknown function DUF262; Region: DUF262; cl14890 465515005140 Protein of unknown function DUF262; Region: DUF262; cl14890 465515005141 Protein of unknown function DUF262; Region: DUF262; cl14890 465515005142 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 465515005143 GIY-YIG domain of uncharacterized bacterial protein structurally related to COG3410; Region: GIY-YIG_COG3410; cd10439 465515005144 GIY-YIG motif/motif A; other site 465515005145 putative active site [active] 465515005146 putative metal binding site [ion binding]; other site 465515005147 Uncharacterized conserved protein [Function unknown]; Region: COG3410 465515005148 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 465515005149 Transposase; Region: DDE_Tnp_ISL3; pfam01610 465515005150 PhoD-like phosphatase; Region: PhoD; pfam09423 465515005151 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 465515005152 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 465515005153 putative active site [active] 465515005154 putative metal binding site [ion binding]; other site 465515005155 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 465515005156 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 465515005157 active site 465515005158 catalytic site [active] 465515005159 substrate binding site [chemical binding]; other site 465515005160 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 465515005161 active site 465515005162 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cl11394 465515005163 active site 465515005164 This family is most closely related to the GT1 family of glycosyltransferases. aviGT4 in Streptomyces viridochromogenes has been shown to be involved in biosynthesis of oligosaccharide antibiotic avilamycin A. Inactivation of aviGT4 resulted in a...; Region: GT1_AviGT4_like; cd03802 465515005165 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 465515005166 putative ADP-binding pocket [chemical binding]; other site 465515005167 Uncharacterised ACR, YkgG family COG1556; Region: DUF162; cl00674 465515005168 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 465515005169 Uncharacterised ACR, YkgG family COG1556; Region: DUF162; cl00674 465515005170 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 465515005171 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 465515005172 Cysteine-rich domain; Region: CCG; pfam02754 465515005173 Cysteine-rich domain; Region: CCG; pfam02754 465515005174 glycolate transporter; Provisional; Region: PRK09695 465515005175 L-lactate permease; Region: Lactate_perm; cl00701 465515005176 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 465515005177 DNA-binding site [nucleotide binding]; DNA binding site 465515005178 transcriptional regulator NanR; Provisional; Region: PRK03837 465515005179 FCD domain; Region: FCD; cl11656 465515005180 Protein of unknown function (DUF456); Region: DUF456; cl01069 465515005181 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 465515005182 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 465515005183 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 465515005184 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; pfam05222 465515005185 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515005186 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 465515005187 conserved cys residue [active] 465515005188 pyridoxal biosynthesis lyase PdxS; Provisional; Region: PRK04180 465515005189 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 465515005190 active site 465515005191 multimer interface [polypeptide binding]; other site 465515005192 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 465515005193 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 465515005194 aspartate aminotransferase; Provisional; Region: PRK08361 465515005195 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 465515005196 pyridoxal 5'-phosphate binding site [chemical binding]; other site 465515005197 homodimer interface [polypeptide binding]; other site 465515005198 catalytic residue [active] 465515005199 hypothetical protein; Provisional; Region: PRK12764 465515005200 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 465515005201 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 465515005202 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 465515005203 DNA-binding site [nucleotide binding]; DNA binding site 465515005204 FCD domain; Region: FCD; cl11656 465515005205 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 465515005206 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 465515005207 NAD binding site [chemical binding]; other site 465515005208 catalytic residues [active] 465515005209 3,4-dihydroxyphenylacetate 2,3-dioxygenase; Region: HpaD; TIGR02295 465515005210 N-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD); belongs to the type I class II family of extradiol dioxygenases; Region: HPCD_N_class_II; cd07266 465515005211 tetramer interface [polypeptide binding]; other site 465515005212 C-terminal domain of 3,4-dihydroxyphenylacetate 2,3-dioxygenase (HPCD), which catalyses the second step in the degradation of 4-hydroxyphenylacetate to succinate and pyruvate; belongs to the type I class II family of extradiol dioxygenases; Region: HPCD_C_class_II; cd07256 465515005213 tetramer interface [polypeptide binding]; other site 465515005214 active site 465515005215 metal binding site [ion binding]; metal-binding site 465515005216 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 465515005217 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 465515005218 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 465515005219 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 465515005220 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 465515005221 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise...; Region: Rieske_RO_ferredoxin; cd03528 465515005222 [2Fe-2S] cluster binding site [ion binding]; other site 465515005223 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 465515005224 amidase catalytic site [active] 465515005225 Zn binding residues [ion binding]; other site 465515005226 substrate binding site [chemical binding]; other site 465515005227 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 465515005228 putative peptidoglycan binding site; other site 465515005229 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 465515005230 putative peptidoglycan binding site; other site 465515005231 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 465515005232 putative peptidoglycan binding site; other site 465515005233 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 465515005234 putative peptidoglycan binding site; other site 465515005235 HPP family; Region: HPP; pfam04982 465515005236 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 465515005237 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 465515005238 pyridoxal 5'-phosphate binding site [chemical binding]; other site 465515005239 homodimer interface [polypeptide binding]; other site 465515005240 catalytic residue [active] 465515005241 Transcriptional regulator [Transcription]; Region: IclR; COG1414 465515005242 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 465515005243 phenol 2-monooxygenase; Provisional; Region: PRK08294 465515005244 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515005245 FAD-dependent Phenol hydoxylase (PHOX) family, C-terminal TRX-fold domain; composed of proteins similar to PHOX from the aerobic topsoil yeast Trichosporon cutaneum. PHOX is a flavoprotein monooxygenase that catalyzes the hydroxylation of phenol and...; Region: PHOX_C; cd02979 465515005246 dimer interface [polypeptide binding]; other site 465515005247 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 465515005248 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 465515005249 Phenylacetic acid degradation B; Region: PaaB; cl01371 465515005250 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 465515005251 Domain of unknown function DUF59; Region: DUF59; cl00941 465515005252 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 465515005253 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 465515005254 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-...; Region: PA_degradation_oxidoreductase_like; cd06214 465515005255 FAD binding pocket [chemical binding]; other site 465515005256 FAD binding motif [chemical binding]; other site 465515005257 phosphate binding motif [ion binding]; other site 465515005258 beta-alpha-beta structure motif; other site 465515005259 NAD(p) ribose binding residues [chemical binding]; other site 465515005260 NAD binding pocket [chemical binding]; other site 465515005261 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 465515005262 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 465515005263 catalytic loop [active] 465515005264 iron binding site [ion binding]; other site 465515005265 enoyl-CoA hydratase; Provisional; Region: PRK06688 465515005266 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 465515005267 substrate binding site [chemical binding]; other site 465515005268 oxyanion hole (OAH) forming residues; other site 465515005269 trimer interface [polypeptide binding]; other site 465515005270 metabolite-proton symporter; Region: 2A0106; TIGR00883 465515005271 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 465515005272 putative substrate translocation pore; other site 465515005273 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 465515005274 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 465515005275 dimer interface [polypeptide binding]; other site 465515005276 active site 465515005277 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 465515005278 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 465515005279 substrate binding site [chemical binding]; other site 465515005280 oxyanion hole (OAH) forming residues; other site 465515005281 trimer interface [polypeptide binding]; other site 465515005282 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 465515005283 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 465515005284 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 465515005285 Protein of unknown function (DUF419); Region: DUF419; cl15265 465515005286 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 465515005287 hydrophobic ligand binding site; other site 465515005288 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 465515005289 tetramerization interface [polypeptide binding]; other site 465515005290 active site 465515005291 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 465515005292 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 465515005293 substrate binding site [chemical binding]; other site 465515005294 dimer interface [polypeptide binding]; other site 465515005295 NADP binding site [chemical binding]; other site 465515005296 catalytic residues [active] 465515005297 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 465515005298 active site 2 [active] 465515005299 active site 1 [active] 465515005300 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK08293 465515005301 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 465515005302 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 465515005303 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 465515005304 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 465515005305 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 465515005306 CoenzymeA binding site [chemical binding]; other site 465515005307 subunit interaction site [polypeptide binding]; other site 465515005308 PHB binding site; other site 465515005309 Predicted nuclease (RecB family) [General function prediction only]; Region: COG2251 465515005310 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 465515005311 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 465515005312 Transposase; Region: DDE_Tnp_ISL3; pfam01610 465515005313 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 465515005314 AMP-binding enzyme; Region: AMP-binding; pfam00501 465515005315 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 465515005316 adenylosuccinate lyase; Provisional; Region: PRK09285 465515005317 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 465515005318 tetramer interface [polypeptide binding]; other site 465515005319 UPF0126 domain; Region: UPF0126; pfam03458 465515005320 UPF0126 domain; Region: UPF0126; pfam03458 465515005321 Predicted membrane protein [Function unknown]; Region: COG2860 465515005322 UPF0126 domain; Region: UPF0126; pfam03458 465515005323 UPF0126 domain; Region: UPF0126; pfam03458 465515005324 hypothetical protein; Provisional; Region: PRK13663 465515005325 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4868 465515005326 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 465515005327 C-5 cytosine-specific DNA methylase; Region: DNA_methylase; pfam00145 465515005328 cofactor binding site; other site 465515005329 DNA binding site [nucleotide binding] 465515005330 substrate interaction site [chemical binding]; other site 465515005331 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...; Region: HNHc; cl00083 465515005332 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 465515005333 Transposase; Region: DDE_Tnp_ISL3; pfam01610 465515005334 CoA-transferase family III; Region: CoA_transf_3; cl00778 465515005335 DinB superfamily; Region: DinB_2; cl00986 465515005336 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 465515005337 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 465515005338 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 465515005339 motif II; other site 465515005340 Transposase, Mutator family; Region: Transposase_mut; pfam00872 465515005341 MULE transposase domain; Region: MULE; pfam10551 465515005342 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...; Region: BFIT_BACH; cd03442 465515005343 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 465515005344 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...; Region: ABC_cobalt_CbiO_domain1; cd03225 465515005345 Walker A/P-loop; other site 465515005346 ATP binding site [chemical binding]; other site 465515005347 Q-loop/lid; other site 465515005348 ABC transporter signature motif; other site 465515005349 Walker B; other site 465515005350 D-loop; other site 465515005351 H-loop/switch region; other site 465515005352 BioY family; Region: BioY; cl00560 465515005353 Transposase, Mutator family; Region: Transposase_mut; pfam00872 465515005354 MULE transposase domain; Region: MULE; pfam10551 465515005355 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 465515005356 dimerization interface [polypeptide binding]; other site 465515005357 putative DNA binding site [nucleotide binding]; other site 465515005358 putative Zn2+ binding site [ion binding]; other site 465515005359 Membrane transport protein; Region: Mem_trans; cl09117 465515005360 Low molecular weight phosphatase family; Region: LMWPc; cl00105 465515005361 Active site [active] 465515005362 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 465515005363 dimerization interface [polypeptide binding]; other site 465515005364 putative DNA binding site [nucleotide binding]; other site 465515005365 putative Zn2+ binding site [ion binding]; other site 465515005366 Cadmium resistance transporter; Region: Cad; cl04177 465515005367 Manganese catalase, ferritin-like diiron-binding domain; Region: Mn_catalase; cd01051 465515005368 dimanganese center [ion binding]; other site 465515005369 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 465515005370 Phage integrase family; Region: Phage_integrase; pfam00589 465515005371 DNA binding site [nucleotide binding] 465515005372 Int/Topo IB signature motif; other site 465515005373 active site 465515005374 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 465515005375 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 465515005376 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 465515005377 DNA binding site [nucleotide binding] 465515005378 Int/Topo IB signature motif; other site 465515005379 active site 465515005380 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515005381 NAD(P) binding site [chemical binding]; other site 465515005382 active site 465515005383 Predicted transcriptional regulator [Transcription]; Region: COG1959 465515005384 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 465515005385 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 465515005386 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 465515005387 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 465515005388 dimerization interface [polypeptide binding]; other site 465515005389 LysE type translocator; Region: LysE; cl00565 465515005390 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 465515005391 methionine synthase; Provisional; Region: PRK01207 465515005392 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 catalyses the last step in the production of methionine by...; Region: CIMS_C_terminal_like; cd03311 465515005393 substrate binding site [chemical binding]; other site 465515005394 THF binding site; other site 465515005395 zinc-binding site [ion binding]; other site 465515005396 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 465515005397 cystathionine gamma-synthase; Provisional; Region: PRK07811 465515005398 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 465515005399 homodimer interface [polypeptide binding]; other site 465515005400 substrate-cofactor binding pocket; other site 465515005401 pyridoxal 5'-phosphate binding site [chemical binding]; other site 465515005402 catalytic residue [active] 465515005403 O-acetylhomoserine sulfhydrylase [Amino acid transport and metabolism]; Region: MET17; COG2873 465515005404 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 465515005405 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 465515005406 catalytic residue [active] 465515005407 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 465515005408 S-adenosylmethionine binding site [chemical binding]; other site 465515005409 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 465515005410 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 465515005411 Protein of unknown function (DUF805); Region: DUF805; cl01224 465515005412 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 465515005413 Integrase core domain; Region: rve; cl01316 465515005414 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 465515005415 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 465515005416 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 465515005417 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 465515005418 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 465515005419 S-adenosylmethionine binding site [chemical binding]; other site 465515005420 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_24; cd04683 465515005421 nudix motif; other site 465515005422 RPB11 and RPB3 subunits of RNA polymerase; Region: RNAP_RPB11_RPB3; cl11409 465515005423 Predicted membrane protein (DUF2243); Region: DUF2243; cl01783 465515005424 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; cl09173 465515005425 Transcriptional regulators [Transcription]; Region: MarR; COG1846 465515005426 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 465515005427 OsmC-like protein; Region: OsmC; cl00767 465515005428 Protein of unknown function (DUF805); Region: DUF805; cl01224 465515005429 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 465515005430 active site 465515005431 catalytic triad [active] 465515005432 oxyanion hole [active] 465515005433 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 465515005434 pyridoxal 5'-phosphate binding site [chemical binding]; other site 465515005435 homodimer interface [polypeptide binding]; other site 465515005436 catalytic residue [active] 465515005437 Uncharacterized conserved protein [Function unknown]; Region: COG4715 465515005438 Bacterial SNF2 helicase associated; Region: SNF2_assoc; pfam08455 465515005439 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 465515005440 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 465515005441 ATP binding site [chemical binding]; other site 465515005442 putative Mg++ binding site [ion binding]; other site 465515005443 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 465515005444 nucleotide binding region [chemical binding]; other site 465515005445 ATP-binding site [chemical binding]; other site 465515005446 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515005447 NAD(P) binding site [chemical binding]; other site 465515005448 active site 465515005449 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 465515005450 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 465515005451 active site 465515005452 UbiA prenyltransferase family; Region: UbiA; cl00337 465515005453 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515005454 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515005455 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 465515005456 substrate binding pocket [chemical binding]; other site 465515005457 substrate-Mg2+ binding site; other site 465515005458 aspartate-rich region 1; other site 465515005459 aspartate-rich region 2; other site 465515005460 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 465515005461 substrate binding pocket [chemical binding]; other site 465515005462 aspartate-rich region 1; other site 465515005463 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 465515005464 substrate binding pocket [chemical binding]; other site 465515005465 aspartate-rich region 2; other site 465515005466 substrate-Mg2+ binding site; other site 465515005467 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and...; Region: IPP_Isomerase; cd02885 465515005468 active site 465515005469 metal binding site [ion binding]; metal-binding site 465515005470 nudix motif; other site 465515005471 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 465515005472 catalytic residues [active] 465515005473 Dehydroquinase (DHQase), type II. Dehydroquinase (or 3-dehydroquinate dehydratase) catalyzes the reversible dehydration of 3-dehydroquinate to form 3-dehydroshikimate. This reaction is part of two metabolic pathways: the biosynthetic shikimate pathway...; Region: DHQase_II; cd00466 465515005474 trimer interface [polypeptide binding]; other site 465515005475 active site 465515005476 dimer interface [polypeptide binding]; other site 465515005477 Uncharacterized stress protein (general stress protein 26) [General function prediction only]; Region: COG3871 465515005478 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK14459 465515005479 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 465515005480 FeS/SAM binding site; other site 465515005481 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 465515005482 Isochorismate synthase [Coenzyme metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: MenF; COG1169 465515005483 chorismate binding enzyme; Region: Chorismate_bind; cl10555 465515005484 Low molecular weight phosphatase family; Region: LMWPc; cl00105 465515005485 Active site [active] 465515005486 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 465515005487 putative homotetramer interface [polypeptide binding]; other site 465515005488 putative homodimer interface [polypeptide binding]; other site 465515005489 putative allosteric switch controlling residues; other site 465515005490 putative metal binding site [ion binding]; other site 465515005491 putative homodimer-homodimer interface [polypeptide binding]; other site 465515005492 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 465515005493 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 465515005494 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 465515005495 metal-binding site [ion binding] 465515005496 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 465515005497 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; cl11391 465515005498 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; cl11391 465515005499 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_7; cd07825 465515005500 putative hydrophobic ligand binding site [chemical binding]; other site 465515005501 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 465515005502 CoenzymeA binding site [chemical binding]; other site 465515005503 subunit interaction site [polypeptide binding]; other site 465515005504 PHB binding site; other site 465515005505 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 465515005506 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 465515005507 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 465515005508 NAD binding site [chemical binding]; other site 465515005509 substrate binding site [chemical binding]; other site 465515005510 catalytic Zn binding site [ion binding]; other site 465515005511 tetramer interface [polypeptide binding]; other site 465515005512 structural Zn binding site [ion binding]; other site 465515005513 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 465515005514 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 465515005515 NAD(P) binding site [chemical binding]; other site 465515005516 catalytic residues [active] 465515005517 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 465515005518 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 465515005519 Protein of unknown function (DUF779); Region: DUF779; cl01432 465515005520 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 465515005521 thiamine pyrophosphate protein; Validated; Region: PRK08199 465515005522 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 465515005523 PYR/PP interface [polypeptide binding]; other site 465515005524 dimer interface [polypeptide binding]; other site 465515005525 TPP binding site [chemical binding]; other site 465515005526 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 465515005527 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...; Region: TPP_enzymes; cd00568 465515005528 TPP-binding site [chemical binding]; other site 465515005529 CGNR zinc finger; Region: zf-CGNR; pfam11706 465515005530 putative transposase OrfB; Reviewed; Region: PHA02517 465515005531 Integrase core domain; Region: rve; cl01316 465515005532 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl11406 465515005533 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 465515005534 LDH/MDH dimer interface [polypeptide binding]; other site 465515005535 NAD(P) binding site [chemical binding]; other site 465515005536 substrate binding site [chemical binding]; other site 465515005537 putative efflux protein, MATE family; Region: matE; TIGR00797 465515005538 MatE; Region: MatE; cl10513 465515005539 Predicted membrane protein (DUF2319); Region: DUF2319; pfam10081 465515005540 CAAX amino terminal protease self- immunity; Region: Abi; cl00558 465515005541 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 465515005542 active site 465515005543 metal binding site [ion binding]; metal-binding site 465515005544 high affinity sulphate transporter 1; Region: sulP; TIGR00815 465515005545 Sulfate transporter family; Region: Sulfate_transp; cl00967 465515005546 Sulfate transporter family; Region: Sulfate_transp; cl00967 465515005547 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 465515005548 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 465515005549 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 465515005550 Walker A/P-loop; other site 465515005551 ATP binding site [chemical binding]; other site 465515005552 Q-loop/lid; other site 465515005553 ABC transporter signature motif; other site 465515005554 Walker B; other site 465515005555 D-loop; other site 465515005556 H-loop/switch region; other site 465515005557 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 465515005558 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 465515005559 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide...; Region: ABCC_Glucan_exporter_like; cd03254 465515005560 Walker A/P-loop; other site 465515005561 ATP binding site [chemical binding]; other site 465515005562 Q-loop/lid; other site 465515005563 ABC transporter signature motif; other site 465515005564 Walker B; other site 465515005565 D-loop; other site 465515005566 H-loop/switch region; other site 465515005567 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 465515005568 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 465515005569 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 465515005570 Walker A/P-loop; other site 465515005571 ATP binding site [chemical binding]; other site 465515005572 Q-loop/lid; other site 465515005573 ABC transporter signature motif; other site 465515005574 Walker B; other site 465515005575 D-loop; other site 465515005576 H-loop/switch region; other site 465515005577 Transcriptional regulators CsoR (copper-sensitive operon repressor), RcnR, and FrmR, and related domains; this domain superfamily was previously known as DUF156; Region: CsoR-like_DUF156; cd10148 465515005578 putative homotetramer interface [polypeptide binding]; other site 465515005579 putative homodimer interface [polypeptide binding]; other site 465515005580 putative allosteric switch controlling residues; other site 465515005581 putative metal binding site [ion binding]; other site 465515005582 putative homodimer-homodimer interface [polypeptide binding]; other site 465515005583 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 465515005584 active site residue [active] 465515005585 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 465515005586 molybdopterin biosynthesis protein MoeB; Validated; Region: PRK08762 465515005587 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 465515005588 active site residue [active] 465515005589 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 465515005590 putative active site [active] 465515005591 catalytic site [active] 465515005592 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 465515005593 putative active site [active] 465515005594 catalytic site [active] 465515005595 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 465515005596 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 465515005597 active site 2 [active] 465515005598 active site 1 [active] 465515005599 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 465515005600 23S rRNA methyluridine methyltransferase; Reviewed; Region: rumB; PRK03522 465515005601 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 465515005602 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 465515005603 motif II; other site 465515005604 Trehalose and maltose hydrolases (possible phosphorylases) [Carbohydrate transport and metabolism]; Region: ATH1; COG1554 465515005605 Glycosyl hydrolase family 65, N-terminal domain; Region: Glyco_hydro_65N; pfam03636 465515005606 Glycosyl hydrolase family 65, C-terminal domain; Region: Glyco_hydro_65C; pfam03633 465515005607 Transposase; Region: DEDD_Tnp_IS110; pfam01548 465515005608 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 465515005609 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 465515005610 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 465515005611 Walker A/P-loop; other site 465515005612 ATP binding site [chemical binding]; other site 465515005613 Q-loop/lid; other site 465515005614 ABC transporter signature motif; other site 465515005615 Walker B; other site 465515005616 D-loop; other site 465515005617 H-loop/switch region; other site 465515005618 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 465515005619 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 465515005620 Bacterial membrane flanked domain; Region: DUF304; cl01348 465515005621 Bacterial membrane flanked domain; Region: DUF304; cl01348 465515005622 Bacterial membrane flanked domain; Region: DUF304; cl01348 465515005623 Histidine kinase; Region: HisKA_3; pfam07730 465515005624 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 465515005625 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 465515005626 active site 465515005627 phosphorylation site [posttranslational modification] 465515005628 intermolecular recognition site; other site 465515005629 dimerization interface [polypeptide binding]; other site 465515005630 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...; Region: LuxR_C_like; cd06170 465515005631 dimerization interface [polypeptide binding]; other site 465515005632 DNA binding residues [nucleotide binding] 465515005633 Histidine kinase; Region: HisKA_3; pfam07730 465515005634 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 465515005635 L-lactate permease; Region: Lactate_perm; cl00701 465515005636 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 465515005637 Histidine kinase; Region: HisKA_3; pfam07730 465515005638 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 465515005639 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 465515005640 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 465515005641 active site 465515005642 phosphorylation site [posttranslational modification] 465515005643 intermolecular recognition site; other site 465515005644 dimerization interface [polypeptide binding]; other site 465515005645 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...; Region: LuxR_C_like; cd06170 465515005646 DNA binding residues [nucleotide binding] 465515005647 dimerization interface [polypeptide binding]; other site 465515005648 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 465515005649 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 465515005650 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 465515005651 Walker A/P-loop; other site 465515005652 ATP binding site [chemical binding]; other site 465515005653 Q-loop/lid; other site 465515005654 ABC transporter signature motif; other site 465515005655 Walker B; other site 465515005656 D-loop; other site 465515005657 H-loop/switch region; other site 465515005658 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 465515005659 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 465515005660 Membrane transport protein; Region: Mem_trans; cl09117 465515005661 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 465515005662 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 465515005663 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 465515005664 Walker A/P-loop; other site 465515005665 ATP binding site [chemical binding]; other site 465515005666 Q-loop/lid; other site 465515005667 ABC transporter signature motif; other site 465515005668 Walker B; other site 465515005669 D-loop; other site 465515005670 H-loop/switch region; other site 465515005671 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 465515005672 nudix motif; other site 465515005673 LysE type translocator; Region: LysE; cl00565 465515005674 LysE type translocator; Region: LysE; cl00565 465515005675 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 465515005676 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 465515005677 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 465515005678 dimerization interface [polypeptide binding]; other site 465515005679 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 trans-...; Region: HisKA; cd00082 465515005680 dimer interface [polypeptide binding]; other site 465515005681 phosphorylation site [posttranslational modification] 465515005682 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 465515005683 ATP binding site [chemical binding]; other site 465515005684 Mg2+ binding site [ion binding]; other site 465515005685 G-X-G motif; other site 465515005686 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 465515005687 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 465515005688 active site 465515005689 phosphorylation site [posttranslational modification] 465515005690 intermolecular recognition site; other site 465515005691 dimerization interface [polypeptide binding]; other site 465515005692 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...; Region: trans_reg_C; cd00383 465515005693 DNA binding site [nucleotide binding] 465515005694 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 465515005695 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 465515005696 S-adenosylmethionine binding site [chemical binding]; other site 465515005697 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...; Region: FhuD; cd01146 465515005698 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 465515005699 siderophore binding site; other site 465515005700 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...; Region: TM_ABC_iron-siderophores_like; cl00462 465515005701 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...; Region: TM_ABC_iron-siderophores_like; cl00462 465515005702 iron-dicitrate transporter ATP-binding subunit; Provisional; Region: fecE; PRK11231 465515005703 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 465515005704 Walker A/P-loop; other site 465515005705 ATP binding site [chemical binding]; other site 465515005706 Q-loop/lid; other site 465515005707 ABC transporter signature motif; other site 465515005708 Walker B; other site 465515005709 D-loop; other site 465515005710 H-loop/switch region; other site 465515005711 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 465515005712 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 465515005713 FAD binding pocket [chemical binding]; other site 465515005714 FAD binding motif [chemical binding]; other site 465515005715 phosphate binding motif [ion binding]; other site 465515005716 NAD binding pocket [chemical binding]; other site 465515005717 atypical (a) SDRs, subgroup 5; Region: SDR_a5; cd05243 465515005718 NAD(P) binding site [chemical binding]; other site 465515005719 putative active site [active] 465515005720 Glutaminase; Region: Glutaminase; cl00907 465515005721 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 465515005722 LabA_like proteins. A well conserved group of bacterial proteins with no defined function. LabA, a member from Synechococcus elongatus PCC 7942, has been shown to play a role in cyanobacterial circadian timing. It is required for negative feedback...; Region: LabA_like; cd06167 465515005723 putative metal binding site [ion binding]; other site 465515005724 FAD binding domain; Region: FAD_binding_4; pfam01565 465515005725 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 465515005726 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...; Region: 4HBT; cd00586 465515005727 active site 465515005728 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 465515005729 synthetase active site [active] 465515005730 NTP binding site [chemical binding]; other site 465515005731 metal binding site [ion binding]; metal-binding site 465515005732 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 465515005733 TIGR03086 family protein; Region: TIGR03086 465515005734 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 465515005735 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 465515005736 Transposase; Region: DDE_Tnp_ISL3; pfam01610 465515005737 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 465515005738 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 465515005739 Predicted membrane protein [Function unknown]; Region: COG1511 465515005740 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 465515005741 Predicted membrane protein [Function unknown]; Region: COG1511 465515005742 YhgE/Pip C-terminal domain; Region: pip_yhgE_Cterm; TIGR03062 465515005743 ABC-2 type transporter; Region: ABC2_membrane; cl11417 465515005744 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 465515005745 Walker A/P-loop; other site 465515005746 ATP binding site [chemical binding]; other site 465515005747 Q-loop/lid; other site 465515005748 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 465515005749 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 465515005750 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515005751 Peptidase family M23; Region: Peptidase_M23; pfam01551 465515005752 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 465515005753 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 465515005754 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 465515005755 Regulator of polyketide synthase expression [Signal transduction mechanisms / Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG2508 465515005756 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_2; cd06216 465515005757 FAD binding pocket [chemical binding]; other site 465515005758 FAD binding motif [chemical binding]; other site 465515005759 phosphate binding motif [ion binding]; other site 465515005760 beta-alpha-beta structure motif; other site 465515005761 NAD binding pocket [chemical binding]; other site 465515005762 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 465515005763 catalytic loop [active] 465515005764 iron binding site [ion binding]; other site 465515005765 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 465515005766 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 465515005767 putative di-iron ligands [ion binding]; other site 465515005768 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These...; Region: Delta6-FADS-like; cd03506 465515005769 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 465515005770 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...; Region: TM_PBP2; cd06261 465515005771 dimer interface [polypeptide binding]; other site 465515005772 conserved gate region; other site 465515005773 putative PBP binding loops; other site 465515005774 ABC-ATPase subunit interface; other site 465515005775 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...; Region: TM_PBP2; cd06261 465515005776 dimer interface [polypeptide binding]; other site 465515005777 conserved gate region; other site 465515005778 putative PBP binding loops; other site 465515005779 ABC-ATPase subunit interface; other site 465515005780 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 465515005781 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 465515005782 Transcriptional regulators [Transcription]; Region: PurR; COG1609 465515005783 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 465515005784 DNA binding site [nucleotide binding] 465515005785 domain linker motif; other site 465515005786 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 465515005787 dimerization interface [polypeptide binding]; other site 465515005788 ligand binding site [chemical binding]; other site 465515005789 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 465515005790 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 465515005791 Walker A/P-loop; other site 465515005792 ATP binding site [chemical binding]; other site 465515005793 Q-loop/lid; other site 465515005794 ABC transporter signature motif; other site 465515005795 Walker B; other site 465515005796 D-loop; other site 465515005797 H-loop/switch region; other site 465515005798 TOBE domain; Region: TOBE_2; cl01440 465515005799 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_7; cd07825 465515005800 putative hydrophobic ligand binding site [chemical binding]; other site 465515005801 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 465515005802 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 465515005803 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...; Region: NrdH; cd02976 465515005804 catalytic residues [active] 465515005805 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 465515005806 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 465515005807 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 465515005808 catalytic residues [active] 465515005809 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH; cd00488 465515005810 aromatic arch; other site 465515005811 DCoH dimer interaction site [polypeptide binding]; other site 465515005812 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 465515005813 DCoH tetramer interaction site [polypeptide binding]; other site 465515005814 substrate binding site [chemical binding]; other site 465515005815 Protein of unknown function (DUF2809); Region: DUF2809; pfam10990 465515005816 Cyanate permease [Inorganic ion transport and metabolism]; Region: CynX; COG2807 465515005817 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl14614 465515005818 NAD(P) binding site [chemical binding]; other site 465515005819 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 465515005820 potential catalytic triad [active] 465515005821 conserved cys residue [active] 465515005822 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 465515005823 Malate:quinone oxidoreductase (Mqo); Region: Mqo; cl14881 465515005824 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1)...; Region: Rieske; cl00938 465515005825 iron-sulfur cluster [ion binding]; other site 465515005826 [2Fe-2S] cluster binding site [ion binding]; other site 465515005827 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 465515005828 active site 465515005829 metal binding site [ion binding]; metal-binding site 465515005830 oxidoreductase; Provisional; Region: PRK06128 465515005831 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 465515005832 NAD binding site [chemical binding]; other site 465515005833 metal binding site [ion binding]; metal-binding site 465515005834 active site 465515005835 Bacterial transcription activator, effector binding domain; Region: AraC_E_bind; cl01368 465515005836 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 465515005837 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 465515005838 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 465515005839 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 465515005840 active site 465515005841 cystathionine gamma-lyase; Validated; Region: PRK07582 465515005842 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 465515005843 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 465515005844 catalytic residue [active] 465515005845 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 465515005846 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 465515005847 Walker A/P-loop; other site 465515005848 ATP binding site [chemical binding]; other site 465515005849 Q-loop/lid; other site 465515005850 ABC transporter signature motif; other site 465515005851 Walker B; other site 465515005852 D-loop; other site 465515005853 H-loop/switch region; other site 465515005854 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 465515005855 Walker A/P-loop; other site 465515005856 ATP binding site [chemical binding]; other site 465515005857 Q-loop/lid; other site 465515005858 ABC transporter signature motif; other site 465515005859 Walker B; other site 465515005860 D-loop; other site 465515005861 H-loop/switch region; other site 465515005862 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 465515005863 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 465515005864 DinB superfamily; Region: DinB_2; cl00986 465515005865 Helix-Turn-Helix DNA binding domain of the BmrR transcription regulator; Region: HTH_BmrR; cd01107 465515005866 DNA binding residues [nucleotide binding] 465515005867 drug binding residues [chemical binding]; other site 465515005868 putative inner membrane protein; Provisional; Region: PRK11099 465515005869 putative inner membrane protein; Provisional; Region: PRK11099 465515005870 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 two-...; Region: SirA_YedF_YeeD; cd00291 465515005871 CPxP motif; other site 465515005872 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH3; cd08287 465515005873 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 465515005874 catalytic Zn binding site [ion binding]; other site 465515005875 NAD(P) binding site [chemical binding]; other site 465515005876 structural Zn binding site [ion binding]; other site 465515005877 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07656 465515005878 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 465515005879 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 465515005880 Polysaccharide deacetylase; Region: Polysacc_deac_1; cl12061 465515005881 Asparaginase (amidohydrolase): Asparaginases are tetrameric enzymes that catalyze the hydrolysis of asparagine to aspartic acid and ammonia. In bacteria, there are two classes of amidohydrolases, one highly specific for asparagine and localised to the...; Region: Asparaginase; cl00216 465515005882 active site/substrate binding site [active] 465515005883 tetramer interface [polypeptide binding]; other site 465515005884 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 465515005885 DNA binding residues [nucleotide binding] 465515005886 allantoate amidohydrolase; Reviewed; Region: PRK12893 465515005887 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 465515005888 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 465515005889 Protein of unknown function (DUF3375); Region: DUF3375; pfam11855 465515005890 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4913 465515005891 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 465515005892 Walker A/P-loop; other site 465515005893 ATP binding site [chemical binding]; other site 465515005894 Uncharacterized protein conserved in bacteria N-term (DUF3322); Region: DUF3322; pfam11795 465515005895 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 465515005896 Predicted membrane-bound metal-dependent hydrolase (DUF457); Region: DUF457; cl00868 465515005897 LrgB-like family; Region: LrgB; cl00596 465515005898 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 465515005899 DNA-binding site [nucleotide binding]; DNA binding site 465515005900 FCD domain; Region: FCD; cl11656 465515005901 Fic/DOC family; Region: Fic; cl00960 465515005902 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 465515005903 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 465515005904 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 465515005905 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 465515005906 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 465515005907 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 465515005908 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-...; Region: MIP; cl00200 465515005909 amphipathic channel; other site 465515005910 Asn-Pro-Ala signature motifs; other site 465515005911 glycerol kinase; Provisional; Region: glpK; PRK00047 465515005912 Cellulomonas sp. glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_CsGK_like; cd07789 465515005913 N- and C-terminal domain interface [polypeptide binding]; other site 465515005914 putative active site [active] 465515005915 putative MgATP binding site [chemical binding]; other site 465515005916 catalytic site [active] 465515005917 metal binding site [ion binding]; metal-binding site 465515005918 putative homotetramer interface [polypeptide binding]; other site 465515005919 putative glycerol binding site [chemical binding]; other site 465515005920 homodimer interface [polypeptide binding]; other site 465515005921 potential frameshift: common BLAST hit: gi|145224883|ref|YP_001135561.1| excinuclease ABC subunit C 465515005922 GIY-YIG nuclease domain superfamily; Region: GIY-YIG_SF; cl15257 465515005923 active site 465515005924 catalytic site [active] 465515005925 metal binding site [ion binding]; metal-binding site 465515005926 M28, and M42; Region: Zinc_peptidase_like; cl14876 465515005927 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 465515005928 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3293 465515005929 AIPR protein; Region: AIPR; pfam10592 465515005930 replicative DNA helicase; Region: DnaB; TIGR00665 465515005931 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 465515005932 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 465515005933 Walker A motif; other site 465515005934 ATP binding site [chemical binding]; other site 465515005935 Walker B motif; other site 465515005936 DNA binding loops [nucleotide binding] 465515005937 CoA-transferase family III; Region: CoA_transf_3; cl00778 465515005938 acyl-coenzyme A oxidase; Region: PLN02526 465515005939 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 465515005940 active site 465515005941 ribosomal protein S6 modification protein; Provisional; Region: PRK10446 465515005942 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 465515005943 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; cl09110 465515005944 Protein of unknown function (DUF785); Region: DUF785; cl01682 465515005945 A functionally uncharacterized subgroup of the Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA) subfamily which is part of the M14 family of metallocarboxypeptidases. ASTE catalyzes the fifth and last step in arginine catabolism by the...; Region: M14_ASTE_ASPA_like_1; cd06251 465515005946 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 465515005947 putative active site [active] 465515005948 Zn-binding site [ion binding]; other site 465515005949 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 465515005950 putative substrate translocation pore; other site 465515005951 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 465515005952 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 465515005953 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 465515005954 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 465515005955 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 465515005956 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 465515005957 dimer interface [polypeptide binding]; other site 465515005958 ssDNA binding site [nucleotide binding]; other site 465515005959 tetramer (dimer of dimers) interface [polypeptide binding]; other site 465515005960 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 465515005961 M18 Peptidase Aspartyl aminopeptidase; Region: M18_DAP; cd05658 465515005962 active site 465515005963 metal binding site [ion binding]; metal-binding site 465515005964 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 465515005965 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 465515005966 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; pfam07994 465515005967 Myo-inositol-1-phosphate synthase; Region: Inos-1-P_synth; cl00554 465515005968 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 465515005969 active site 465515005970 catalytic triad [active] 465515005971 oxyanion hole [active] 465515005972 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 465515005973 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 465515005974 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 465515005975 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 465515005976 active site 465515005977 NTP binding site [chemical binding]; other site 465515005978 metal binding triad [ion binding]; metal-binding site 465515005979 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 465515005980 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 465515005981 Zn2+ binding site [ion binding]; other site 465515005982 Mg2+ binding site [ion binding]; other site 465515005983 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 465515005984 active site 465515005985 Ap6A binding site [chemical binding]; other site 465515005986 nudix motif; other site 465515005987 metal binding site [ion binding]; metal-binding site 465515005988 integral membrane protein MviN; Region: mviN; TIGR01695 465515005989 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 465515005990 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515005991 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 465515005992 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 465515005993 catalytic residues [active] 465515005994 ParB-like partition proteins; Region: parB_part; TIGR00180 465515005995 ParB-like nuclease domain; Region: ParBc; cl02129 465515005996 Domain of unknown function (DUF1802); Region: DUF1802; cl01755 465515005997 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following...; Region: ParA; cd02042 465515005998 Magnesium ion binding site [ion binding]; other site 465515005999 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 465515006000 jag_K homology RNA-binding domain. The KH domain is found in proteins homologous to the Bacillus subtilis protein Jag, which is associated with SpoIIIJ and is necessary for the third stage of sporulation. The KH motif is a beta-alpha-alpha-beta-beta...; Region: jag_KH; cd02414 465515006001 G-X-X-G motif; other site 465515006002 R3H domain found in proteins homologous to Bacillus subtilus Jag, which is associated with SpoIIIJ. SpoIIIJ is necessary for the third stage of sporulation. The name of the R3H domain comes from the characteristic spacing of the most conserved arginine...; Region: R3H_jag; cd02644 465515006003 RxxxH motif; other site 465515006004 putative inner membrane protein translocase component YidC; Provisional; Region: PRK01315 465515006005 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 465515006006 Domain of unknown function DUF37; Region: DUF37; cl00506 465515006007 Ribonuclease P; Region: Ribonuclease_P; cl00457