-- dump date 20120504_151547 -- class Genbank::misc_feature -- table misc_feature_note -- id note 281090000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 281090000002 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 281090000003 Walker A motif; other site 281090000004 ATP binding site [chemical binding]; other site 281090000005 Walker B motif; other site 281090000006 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 281090000007 arginine finger; other site 281090000008 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 281090000009 DnaA box-binding interface [nucleotide binding]; other site 281090000010 DNA polymerase III subunit beta; Validated; Region: PRK07761 281090000011 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 281090000012 putative DNA binding surface [nucleotide binding]; other site 281090000013 dimer interface [polypeptide binding]; other site 281090000014 beta-clamp/clamp loader binding surface; other site 281090000015 beta-clamp/translesion DNA polymerase binding surface; other site 281090000016 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090000017 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK12490 281090000018 recombination protein F; Reviewed; Region: recF; PRK00064 281090000019 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 281090000020 Walker A/P-loop; other site 281090000021 ATP binding site [chemical binding]; other site 281090000022 Q-loop/lid; other site 281090000023 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 281090000024 ABC transporter signature motif; other site 281090000025 Walker B; other site 281090000026 D-loop; other site 281090000027 H-loop/switch region; other site 281090000028 Protein of unknown function (DUF721); Region: DUF721; cl02324 281090000029 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 281090000030 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 281090000031 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 281090000032 anchoring element; other site 281090000033 dimer interface [polypeptide binding]; other site 281090000034 ATP binding site [chemical binding]; other site 281090000035 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 281090000036 active site 281090000037 putative metal-binding site [ion binding]; other site 281090000038 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 281090000039 DNA gyrase subunit A; Validated; Region: PRK05560 281090000040 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 281090000041 CAP-like domain; other site 281090000042 active site 281090000043 primary dimer interface [polypeptide binding]; other site 281090000044 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 281090000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 281090000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 281090000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 281090000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 281090000049 Transmembrane domain of unknown function (DUF3566); Region: DUF3566; pfam12089 281090000050 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 281090000051 Uncharacterized bacterial subgroup of the N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases; Region: BaFpgNei_N_1; cd08973 281090000052 putative DNA binding site [nucleotide binding]; other site 281090000053 catalytic residue [active] 281090000054 putative H2TH interface [polypeptide binding]; other site 281090000055 putative catalytic residues [active] 281090000056 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 281090000057 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. Enzymes...; Region: Nudix_Hydrolase_25; cd04684 281090000058 nudix motif; other site 281090000059 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 281090000060 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 281090000061 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; cd00317 281090000062 active site 281090000063 Rhomboid family; Region: Rhomboid; cl11446 281090000064 Rhomboid family; Region: Rhomboid; cl11446 281090000065 Uncharacterized protein family (UPF0233); Region: UPF0233; cl11506 281090000066 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved...; Region: Sortase_D_5; cd05830 281090000067 active site 281090000068 catalytic site [active] 281090000069 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 281090000070 Glutamine amidotransferase class-I; Region: GATase; pfam00117 281090000071 glutamine binding [chemical binding]; other site 281090000072 catalytic triad [active] 281090000073 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 281090000074 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 281090000075 active site 281090000076 ATP binding site [chemical binding]; other site 281090000077 substrate binding site [chemical binding]; other site 281090000078 activation loop (A-loop); other site 281090000079 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 281090000080 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 281090000081 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 281090000082 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 281090000083 Catalytic domain of Protein Kinases; Region: PKc; cd00180 281090000084 active site 281090000085 ATP binding site [chemical binding]; other site 281090000086 substrate binding site [chemical binding]; other site 281090000087 activation loop (A-loop); other site 281090000088 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 281090000089 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 281090000090 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 281090000091 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 281090000092 active site 281090000093 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 281090000094 phosphopeptide binding site; other site 281090000095 Protein of unknown function (DUF2662); Region: DUF3662; pfam12401 281090000096 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 281090000097 phosphopeptide binding site; other site 281090000098 Uncharacterized BCR, COG1649; Region: DUF187; cl15398 281090000099 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 281090000100 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 281090000101 shikimate binding site; other site 281090000102 NAD(P) binding site [chemical binding]; other site 281090000103 xylose transporter ATP-binding subunit; Provisional; Region: PRK13549 281090000104 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 hexoses...; Region: ABC_Carb_Monos_I; cd03216 281090000105 Walker A/P-loop; other site 281090000106 ATP binding site [chemical binding]; other site 281090000107 Q-loop/lid; other site 281090000108 ABC transporter signature motif; other site 281090000109 Walker B; other site 281090000110 D-loop; other site 281090000111 H-loop/switch region; other site 281090000112 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 281090000113 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 281090000114 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 281090000115 TM-ABC transporter signature motif; other site 281090000116 ABC-type xylose transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: XylF; COG4213 281090000117 Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_xylose_binding; cd01538 281090000118 putative ligand binding site [chemical binding]; other site 281090000119 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 281090000120 non-specific DNA binding site [nucleotide binding]; other site 281090000121 salt bridge; other site 281090000122 sequence-specific DNA binding site [nucleotide binding]; other site 281090000123 Domain of unknown function (DUF955); Region: DUF955; cl01076 281090000124 SEST_like. A family of secreted SGNH-hydrolases similar to Streptomyces scabies esterase (SEST), a causal agent of the potato scab disease, which hydrolyzes a specific ester bond in suberin, a plant lipid. The tertiary fold of this enzyme is...; Region: SEST_like; cd01823 281090000125 active site 281090000126 catalytic triad [active] 281090000127 oxyanion hole [active] 281090000128 Protein of unknown function (DUF2746); Region: DUF2746; pfam10874 281090000129 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cd00599 281090000130 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 281090000131 active site 281090000132 Helix-turn-helix domains; Region: HTH; cl00088 281090000133 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 281090000134 nudix motif; other site 281090000135 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 281090000136 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 281090000137 DNA binding site [nucleotide binding] 281090000138 Int/Topo IB signature motif; other site 281090000139 active site 281090000140 catalytic residues [active] 281090000141 Transcriptional regulators [Transcription]; Region: GntR; COG1802 281090000142 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 281090000143 DNA-binding site [nucleotide binding]; DNA binding site 281090000144 Transcriptional regulators [Transcription]; Region: GntR; COG1802 281090000145 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 281090000146 DNA-binding site [nucleotide binding]; DNA binding site 281090000147 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 281090000148 Bacterial Ig-like domain; Region: Big_5; cl01012 281090000149 Helix-turn-helix domains; Region: HTH; cl00088 281090000150 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 281090000151 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 281090000152 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 281090000153 dimer interface [polypeptide binding]; other site 281090000154 conserved gate region; other site 281090000155 putative PBP binding loops; other site 281090000156 ABC-ATPase subunit interface; other site 281090000157 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 281090000158 dimer interface [polypeptide binding]; other site 281090000159 conserved gate region; other site 281090000160 putative PBP binding loops; other site 281090000161 ABC-ATPase subunit interface; other site 281090000162 Helix-turn-helix domains; Region: HTH; cl00088 281090000163 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 281090000164 Integrase core domain; Region: rve; cl01316 281090000165 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 281090000166 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 281090000167 substrate binding site [chemical binding]; other site 281090000168 ATP binding site [chemical binding]; other site 281090000169 Transcriptional regulator [Transcription]; Region: IclR; COG1414 281090000170 Helix-turn-helix domains; Region: HTH; cl00088 281090000171 Bacterial transcriptional regulator; Region: IclR; pfam01614 281090000172 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 281090000173 homotrimer interaction site [polypeptide binding]; other site 281090000174 putative active site [active] 281090000175 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 281090000176 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090000177 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 281090000178 CrcB-like protein; Region: CRCB; cl09114 281090000179 CrcB-like protein; Region: CRCB; cl09114 281090000180 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 281090000181 Ligand Binding Site [chemical binding]; other site 281090000182 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 281090000183 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 281090000184 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 281090000185 active site 281090000186 phosphorylation site [posttranslational modification] 281090000187 intermolecular recognition site; other site 281090000188 dimerization interface [polypeptide binding]; other site 281090000189 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 281090000190 DNA binding residues [nucleotide binding] 281090000191 mannitol-1-phosphate 5-dehydrogenase; Provisional; Region: PRK02318 281090000192 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 281090000193 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 281090000194 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 281090000195 active site 281090000196 phosphorylation site [posttranslational modification] 281090000197 Phosphotransferase system, mannitol-specific IIBC component [Carbohydrate transport and metabolism]; Region: MtlA; COG2213 281090000198 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 281090000199 PTS_IIB_mannitol: subunit IIB of enzyme II (EII) of the mannitol-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is a mannitol-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane...; Region: PTS_IIB_mannitol; cd05567 281090000200 active site 281090000201 P-loop; other site 281090000202 phosphorylation site [posttranslational modification] 281090000203 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 281090000204 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 281090000205 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 281090000206 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 281090000207 dimerization domain swap beta strand [polypeptide binding]; other site 281090000208 regulatory protein interface [polypeptide binding]; other site 281090000209 active site 281090000210 regulatory phosphorylation site [posttranslational modification]; other site 281090000211 PTS_IIB: subunit IIB of enzyme II (EII) is the central energy-coupling domain of the phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In the multienzyme PTS complex, EII is a carbohydrate-specific permease consisting of two cytoplasmic...; Region: PTS_IIB; cl10014 281090000212 P-loop; other site 281090000213 active site 281090000214 phosphorylation site [posttranslational modification] 281090000215 OpgC protein; Region: OpgC_C; cl00792 281090000216 Transcriptional antiterminator [Transcription]; Region: BglG; COG3711 281090000217 Helix-turn-helix domains; Region: HTH; cl00088 281090000218 PRD domain; Region: PRD; cl15445 281090000219 PTS_IIB_bgl_like: the PTS (phosphotransferase system) IIB domain of a family of sensory systems composed of a membrane-bound sugar-sensor (similar to BglF) and a transcription antiterminator (similar to BglG) which regulate expression of genes involved...; Region: PTS_IIB_bgl_like; cd05568 281090000220 P-loop; other site 281090000221 active site 281090000222 phosphorylation site [posttranslational modification] 281090000223 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 281090000224 active site 281090000225 phosphorylation site [posttranslational modification] 281090000226 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 281090000227 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 281090000228 motif II; other site 281090000229 Protein of unknown function DUF91; Region: DUF91; cl00709 281090000230 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 281090000231 putative efflux protein, MATE family; Region: matE; TIGR00797 281090000232 MatE; Region: MatE; cl10513 281090000233 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 281090000234 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 281090000235 active site 281090000236 Zn binding site [ion binding]; other site 281090000237 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 281090000238 glycyl-tRNA synthetase; Provisional; Region: PRK04173 281090000239 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 281090000240 motif 1; other site 281090000241 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3'...; Region: GlyRS-like_core; cd00774 281090000242 active site 281090000243 motif 2; other site 281090000244 motif 3; other site 281090000245 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 281090000246 anticodon binding site; other site 281090000247 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 281090000248 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090000249 NAD(P) binding pocket [chemical binding]; other site 281090000250 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 281090000251 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 281090000252 substrate binding site [chemical binding]; other site 281090000253 active site 281090000254 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090000255 protoporphyrinogen oxidase; Reviewed; Region: PRK11883 281090000256 ferrochelatase; Reviewed; Region: hemH; PRK00035 281090000257 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 281090000258 C-terminal domain interface [polypeptide binding]; other site 281090000259 active site 281090000260 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 281090000261 active site 281090000262 N-terminal domain interface [polypeptide binding]; other site 281090000263 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 281090000264 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 281090000265 domain interfaces; other site 281090000266 active site 281090000267 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 281090000268 active site 281090000269 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 281090000270 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 281090000271 dimer interface [polypeptide binding]; other site 281090000272 active site 281090000273 Schiff base residues; other site 281090000274 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 281090000275 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 281090000276 inhibitor-cofactor binding pocket; inhibition site 281090000277 pyridoxal 5'-phosphate binding site [chemical binding]; other site 281090000278 catalytic residue [active] 281090000279 Protein of unknown function (DUF1304); Region: DUF1304; cl01533 281090000280 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 281090000281 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 281090000282 NADP binding site [chemical binding]; other site 281090000283 dimer interface [polypeptide binding]; other site 281090000284 LssY C-terminus; Region: LssY_C; pfam14067 281090000285 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 281090000286 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 281090000287 Ligand binding site; other site 281090000288 Putative Catalytic site; other site 281090000289 DXD motif; other site 281090000290 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 281090000291 substrate binding site [chemical binding]; other site 281090000292 PEP phosphonomutase and related enzymes [Carbohydrate transport and metabolism]; Region: PrpB; COG2513 281090000293 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 281090000294 tetramer interface [polypeptide binding]; other site 281090000295 active site 281090000296 Mg2+/Mn2+ binding site [ion binding]; other site 281090000297 Asp_Lys_Asn_RS_N: N-terminal, anticodon recognition domain of class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. Class 2b aaRSs include the homodimeric aspartyl-; Region: Asp_Lys_Asn_RS_N; cd04100 281090000298 aspartyl-tRNA synthetase; Provisional; Region: aspC; PRK05159 281090000299 Dimer interface [polypeptide binding]; other site 281090000300 anticodon binding site; other site 281090000301 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 281090000302 motif 1; other site 281090000303 dimer interface [polypeptide binding]; other site 281090000304 active site 281090000305 motif 2; other site 281090000306 motif 3; other site 281090000307 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 281090000308 catalytic core [active] 281090000309 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 281090000310 catalytic residues [active] 281090000311 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 281090000312 ResB-like family; Region: ResB; pfam05140 281090000313 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 281090000314 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 281090000315 transcription termination factor Rho; Provisional; Region: PRK12678 281090000316 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 281090000317 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 281090000318 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 281090000319 o-Succinylbenzoate synthase (OSBS) catalyzes the conversion of 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate (SHCHC) to 4-(2'-carboxyphenyl)-4-oxobutyrate (o-succinylbenzoate or OSB), a reaction in the menaquinone biosynthetic pathway; Region: OSBS; cd03320 281090000320 O-succinylbenzoate synthase; Provisional; Region: PRK05105 281090000321 active site 281090000322 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 281090000323 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 281090000324 substrate binding site [chemical binding]; other site 281090000325 oxyanion hole (OAH) forming residues; other site 281090000326 trimer interface [polypeptide binding]; other site 281090000327 AMP-binding enzyme; Region: AMP-binding; cl15778 281090000328 UbiA prenyltransferase family; Region: UbiA; cl00337 281090000329 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 281090000330 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylic-acid synthase; Region: menD; TIGR00173 281090000331 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 281090000332 dimer interface [polypeptide binding]; other site 281090000333 tetramer interface [polypeptide binding]; other site 281090000334 PYR/PP interface [polypeptide binding]; other site 281090000335 TPP binding site [chemical binding]; other site 281090000336 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 281090000337 TPP-binding site; other site 281090000338 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 281090000339 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090000340 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 281090000341 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 281090000342 Helix-turn-helix domains; Region: HTH; cl00088 281090000343 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 281090000344 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 281090000345 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 281090000346 DNA binding site [nucleotide binding] 281090000347 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 281090000348 active site 281090000349 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 281090000350 nucleoside/Zn binding site; other site 281090000351 dimer interface [polypeptide binding]; other site 281090000352 catalytic motif [active] 281090000353 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 281090000354 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 281090000355 Cation efflux family; Region: Cation_efflux; cl00316 281090000356 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090000357 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 281090000358 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090000359 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 281090000360 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 281090000361 Cation transport protein; Region: TrkH; cl10514 281090000362 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 281090000363 dimerization interface [polypeptide binding]; other site 281090000364 putative DNA binding site [nucleotide binding]; other site 281090000365 putative Zn2+ binding site [ion binding]; other site 281090000366 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 281090000367 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 281090000368 Stress responsive A/B Barrel Domain; Region: Dabb; cl15807 281090000369 Transcriptional regulators [Transcription]; Region: GntR; COG1802 281090000370 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 281090000371 DNA-binding site [nucleotide binding]; DNA binding site 281090000372 FCD domain; Region: FCD; cl11656 281090000373 Transcriptional regulators [Transcription]; Region: GntR; COG1802 281090000374 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 281090000375 DNA-binding site [nucleotide binding]; DNA binding site 281090000376 chorismate binding enzyme; Region: Chorismate_bind; cl10555 281090000377 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 281090000378 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 281090000379 S-adenosylmethionine binding site [chemical binding]; other site 281090000380 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090000381 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 281090000382 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 281090000383 substrate binding pocket [chemical binding]; other site 281090000384 chain length determination region; other site 281090000385 substrate-Mg2+ binding site; other site 281090000386 catalytic residues [active] 281090000387 aspartate-rich region 1; other site 281090000388 active site lid residues [active] 281090000389 aspartate-rich region 2; other site 281090000390 ferredoxin-NADP+ reductase; Region: PLN02852 281090000391 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090000392 Protein of unknown function (DUF520); Region: DUF520; cl00723 281090000393 OpgC protein; Region: OpgC_C; cl00792 281090000394 Acyltransferase family; Region: Acyl_transf_3; pfam01757 281090000395 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 281090000396 active site 281090000397 catalytic triad [active] 281090000398 oxyanion hole [active] 281090000399 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 281090000400 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 281090000401 active site 281090000402 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 281090000403 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 281090000404 Ligand binding site; other site 281090000405 Putative Catalytic site; other site 281090000406 DXD motif; other site 281090000407 GT2_BcbE_like is likely involved in the biosynthesis of the polysaccharide capsule; Region: GT2_BcE_like; cd04183 281090000408 Ligand binding site; other site 281090000409 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 281090000410 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 281090000411 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 281090000412 Helix-turn-helix domains; Region: HTH; cl00088 281090000413 Helix-turn-helix domains; Region: HTH; cl00088 281090000414 Transglycosylase; Region: Transgly; cl07896 281090000415 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 281090000416 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 281090000417 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 281090000418 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 281090000419 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 281090000420 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 281090000421 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 281090000422 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, and...; Region: ABCC_Glucan_exporter_like; cd03254 281090000423 Walker A/P-loop; other site 281090000424 ATP binding site [chemical binding]; other site 281090000425 Q-loop/lid; other site 281090000426 ABC transporter signature motif; other site 281090000427 Walker B; other site 281090000428 D-loop; other site 281090000429 H-loop/switch region; other site 281090000430 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 281090000431 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 281090000432 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 281090000433 Walker A/P-loop; other site 281090000434 ATP binding site [chemical binding]; other site 281090000435 Q-loop/lid; other site 281090000436 ABC transporter signature motif; other site 281090000437 Walker B; other site 281090000438 D-loop; other site 281090000439 H-loop/switch region; other site 281090000440 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 281090000441 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 281090000442 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 281090000443 maltooligosyl trehalose synthase; Provisional; Region: PRK14511 281090000444 Alpha amylase catalytic domain found in maltooligosyl trehalose synthase (MTSase); Region: AmyAc_MTSase; cd11336 281090000445 active site 281090000446 catalytic site [active] 281090000447 N-terminal Early set domain associated with the catalytic domain of Maltooligosyl trehalose trehalohydrolase (also called Glycosyltrehalose trehalohydrolase) and similar proteins; Region: E_set_MTHase_like_N; cd02853 281090000448 Alpha amylase catalytic domain found in Glycosyltrehalose trehalohydrolase (also called Maltooligosyl trehalose Trehalohydrolase); Region: AmyAc_GTHase; cd11325 281090000449 catalytic site [active] 281090000450 active site 281090000451 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 281090000452 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 281090000453 Alpha amylase catalytic domain found in glycogen debranching enzymes; Region: AmyAc_Glg_debranch; cd11326 281090000454 active site 281090000455 catalytic site [active] 281090000456 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 281090000457 active site 281090000458 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 281090000459 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 281090000460 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 281090000461 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 281090000462 active site 281090000463 motif I; other site 281090000464 motif II; other site 281090000465 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 281090000466 seryl-tRNA synthetase; Provisional; Region: PRK05431 281090000467 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 281090000468 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme bound...; Region: SerRS_core; cd00770 281090000469 dimer interface [polypeptide binding]; other site 281090000470 active site 281090000471 motif 1; other site 281090000472 motif 2; other site 281090000473 motif 3; other site 281090000474 Prephenate dehydratase; Region: PDT; pfam00800 281090000475 prephenate dehydratase; Provisional; Region: PRK11898 281090000476 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 281090000477 putative L-Phe binding site [chemical binding]; other site 281090000478 phosphoglucomutase; Validated; Region: PRK07564 281090000479 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), phosphoglucosamine...; Region: phosphohexomutase; cl03757 281090000480 active site 281090000481 substrate binding site [chemical binding]; other site 281090000482 metal binding site [ion binding]; metal-binding site 281090000483 Transposase domain (DUF772); Region: DUF772; cl15789 281090000484 hypothetical protein; Provisional; Region: PRK13670 281090000485 NlpC/P60 family; Region: NLPC_P60; cl11438 281090000486 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cd00599 281090000487 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 281090000488 active site 281090000489 Protein of unknown function (DUF2746); Region: DUF2746; pfam10874 281090000490 Domain of unknown function (DUF955); Region: DUF955; cl01076 281090000491 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090000492 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 281090000493 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090000494 Transcriptional regulator [Transcription]; Region: LysR; COG0583 281090000495 Helix-turn-helix domains; Region: HTH; cl00088 281090000496 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_6; cd08423 281090000497 putative dimerization interface [polypeptide binding]; other site 281090000498 Proline dehydrogenase; Region: Pro_dh; cl03282 281090000499 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 281090000500 NAD(P) binding site [chemical binding]; other site 281090000501 catalytic residues [active] 281090000502 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 281090000503 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 281090000504 dimer interface [polypeptide binding]; other site 281090000505 phosphorylation site [posttranslational modification] 281090000506 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 281090000507 ATP binding site [chemical binding]; other site 281090000508 Mg2+ binding site [ion binding]; other site 281090000509 G-X-G motif; other site 281090000510 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 281090000511 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 281090000512 active site 281090000513 phosphorylation site [posttranslational modification] 281090000514 intermolecular recognition site; other site 281090000515 dimerization interface [polypeptide binding]; other site 281090000516 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 281090000517 DNA binding site [nucleotide binding] 281090000518 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 281090000519 The Major Facilitator Superfamily (MFS) is a large and diverse group of secondary transporters that includes uniporters, symporters, and antiporters. MFS proteins facilitate the transport across cytoplasmic or internal membranes of a variety of...; Region: MFS; cl11420 281090000520 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 281090000521 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 281090000522 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 281090000523 dimer interface [polypeptide binding]; other site 281090000524 conserved gate region; other site 281090000525 putative PBP binding loops; other site 281090000526 ABC-ATPase subunit interface; other site 281090000527 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 281090000528 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 281090000529 dimer interface [polypeptide binding]; other site 281090000530 conserved gate region; other site 281090000531 putative PBP binding loops; other site 281090000532 ABC-ATPase subunit interface; other site 281090000533 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 281090000534 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 281090000535 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 281090000536 putative active site [active] 281090000537 Transmembrane secretion effector; Region: MFS_3; pfam05977 281090000538 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 281090000539 Helix-turn-helix domains; Region: HTH; cl00088 281090000540 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 281090000541 Protein of unknown function (DUF3089); Region: DUF3089; pfam11288 281090000542 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 281090000543 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 281090000544 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 281090000545 heme binding pocket [chemical binding]; other site 281090000546 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 281090000547 metal binding site 2 [ion binding]; metal-binding site 281090000548 putative DNA binding helix; other site 281090000549 metal binding site 1 [ion binding]; metal-binding site 281090000550 dimer interface [polypeptide binding]; other site 281090000551 structural Zn2+ binding site [ion binding]; other site 281090000552 Na+/H+ antiporter, bacterial form; Region: a_cpa1; TIGR00831 281090000553 (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 281090000554 active site 281090000555 catalytic site [active] 281090000556 SAV4209_like. Similar in sequence to the Streptomyces avermitilis SAV4209 protein, with a hot dog fold that is similar to those of (R)-specific enoyl-CoA hydratase, the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid...; Region: SAV4209_like; cd03453 281090000557 active site 281090000558 catalytic site [active] 281090000559 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13903 281090000560 FAD binding domain; Region: FAD_binding_4; pfam01565 281090000561 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 281090000562 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 281090000563 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 281090000564 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 281090000565 putative homodimer interface [polypeptide binding]; other site 281090000566 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 281090000567 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 281090000568 23S rRNA interface [nucleotide binding]; other site 281090000569 L7/L12 interface [polypeptide binding]; other site 281090000570 putative thiostrepton binding site; other site 281090000571 L25 interface [polypeptide binding]; other site 281090000572 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 281090000573 mRNA/rRNA interface [nucleotide binding]; other site 281090000574 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 281090000575 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 281090000576 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 281090000577 putative NAD(P) binding site [chemical binding]; other site 281090000578 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 281090000579 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 281090000580 conserved cys residue [active] 281090000581 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 281090000582 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090000583 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 281090000584 Helix-turn-helix domains; Region: HTH; cl00088 281090000585 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 281090000586 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 281090000587 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 281090000588 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090000589 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 281090000590 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 281090000591 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 281090000592 Walker A/P-loop; other site 281090000593 ATP binding site [chemical binding]; other site 281090000594 Q-loop/lid; other site 281090000595 ABC transporter signature motif; other site 281090000596 Walker B; other site 281090000597 D-loop; other site 281090000598 H-loop/switch region; other site 281090000599 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 281090000600 FtsX-like permease family; Region: FtsX; cl15850 281090000601 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 281090000602 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 281090000603 active site 281090000604 phosphorylation site [posttranslational modification] 281090000605 intermolecular recognition site; other site 281090000606 dimerization interface [polypeptide binding]; other site 281090000607 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 281090000608 DNA binding site [nucleotide binding] 281090000609 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 281090000610 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 281090000611 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 281090000612 dimer interface [polypeptide binding]; other site 281090000613 phosphorylation site [posttranslational modification] 281090000614 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 281090000615 ATP binding site [chemical binding]; other site 281090000616 Mg2+ binding site [ion binding]; other site 281090000617 G-X-G motif; other site 281090000618 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 281090000619 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 281090000620 23S rRNA interface [nucleotide binding]; other site 281090000621 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 281090000622 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 281090000623 core dimer interface [polypeptide binding]; other site 281090000624 peripheral dimer interface [polypeptide binding]; other site 281090000625 L10 interface [polypeptide binding]; other site 281090000626 L11 interface [polypeptide binding]; other site 281090000627 putative EF-Tu interaction site [polypeptide binding]; other site 281090000628 putative EF-G interaction site [polypeptide binding]; other site 281090000629 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 281090000630 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 281090000631 MTABC3 (also known as ABCB6) is a mitochondrial ATP-binding cassette protein involved in iron homeostasis and one of four ABC transporters expressed in the mitochondrial inner membrane, the other three being MDL1(ABC7), MDL2, and ATM1. In fact, the...; Region: ABC_MTABC3_MDL1_MDL2; cd03249 281090000632 Walker A/P-loop; other site 281090000633 ATP binding site [chemical binding]; other site 281090000634 Q-loop/lid; other site 281090000635 ABC transporter signature motif; other site 281090000636 Walker B; other site 281090000637 D-loop; other site 281090000638 H-loop/switch region; other site 281090000639 Septum formation; Region: Septum_form; pfam13845 281090000640 Helix-turn-helix domains; Region: HTH; cl00088 281090000641 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 281090000642 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 281090000643 FeoA domain; Region: FeoA; cl00838 281090000644 Acyltransferase family; Region: Acyl_transf_3; pfam01757 281090000645 cystathionine gamma-synthase; Provisional; Region: PRK07811 281090000646 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 281090000647 homodimer interface [polypeptide binding]; other site 281090000648 substrate-cofactor binding pocket; other site 281090000649 pyridoxal 5'-phosphate binding site [chemical binding]; other site 281090000650 catalytic residue [active] 281090000651 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 281090000652 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 281090000653 active site 281090000654 GtrA-like protein; Region: GtrA; cl00971 281090000655 FGGY family of carbohydrate kinases; Region: FGGY; cl08364 281090000656 N- and C-terminal domain interface [polypeptide binding]; other site 281090000657 D-xylulose kinase; Region: XylB; TIGR01312 281090000658 active site 281090000659 MgATP binding site [chemical binding]; other site 281090000660 catalytic site [active] 281090000661 metal binding site [ion binding]; metal-binding site 281090000662 carbohydrate binding site [chemical binding]; other site 281090000663 L-rhamnose isomerase (RhaA); Region: RhaA; cl09945 281090000664 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 281090000665 phosphate acetyltransferase; Reviewed; Region: PRK05632 281090000666 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 281090000667 DRTGG domain; Region: DRTGG; cl12147 281090000668 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 281090000669 Acetokinase family; Region: Acetate_kinase; cl01029 281090000670 propionate/acetate kinase; Provisional; Region: PRK12379 281090000671 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14952 281090000672 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 281090000673 Walker A motif; other site 281090000674 ATP binding site [chemical binding]; other site 281090000675 Walker B motif; other site 281090000676 arginine finger; other site 281090000677 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 281090000678 recombination protein RecR; Reviewed; Region: recR; PRK00076 281090000679 RecR protein; Region: RecR; pfam02132 281090000680 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 281090000681 putative active site [active] 281090000682 putative metal-binding site [ion binding]; other site 281090000683 tetramer interface [polypeptide binding]; other site 281090000684 aspartate kinase; Reviewed; Region: PRK06635 281090000685 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 281090000686 putative nucleotide binding site [chemical binding]; other site 281090000687 putative catalytic residues [active] 281090000688 putative Mg ion binding site [ion binding]; other site 281090000689 putative aspartate binding site [chemical binding]; other site 281090000690 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 281090000691 putative allosteric regulatory site; other site 281090000692 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 281090000693 putative allosteric regulatory residue; other site 281090000694 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 281090000695 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090000696 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 281090000697 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090000698 Predicted dehydrogenase [General function prediction only]; Region: COG0579 281090000699 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 281090000700 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 281090000701 FeS/SAM binding site; other site 281090000702 thymidine kinase; Provisional; Region: PRK04296 281090000703 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 281090000704 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090000705 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 281090000706 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090000707 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 281090000708 Fic family protein [Function unknown]; Region: COG3177 281090000709 Fic/DOC family; Region: Fic; cl00960 281090000710 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 281090000711 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 281090000712 DNA binding site [nucleotide binding] 281090000713 Int/Topo IB signature motif; other site 281090000714 active site 281090000715 catalytic residues [active] 281090000716 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 281090000717 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 281090000718 active site 281090000719 metal binding site [ion binding]; metal-binding site 281090000720 Transglycosylase; Region: Transgly; cl07896 281090000721 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 281090000722 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 281090000723 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 281090000724 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 281090000725 Domain of unknown function (DUF4177); Region: DUF4177; pfam13783 281090000726 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 281090000727 homotrimer interaction site [polypeptide binding]; other site 281090000728 putative active site [active] 281090000729 Helix-turn-helix domains; Region: HTH; cl00088 281090000730 Transposase; Region: DEDD_Tnp_IS110; pfam01548 281090000731 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 281090000732 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cd00599 281090000733 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 281090000734 active site 281090000735 Phage-related protein [Function unknown]; Region: COG5412 281090000736 Phage-related protein [Function unknown]; Region: COG5412 281090000737 tape measure domain; Region: tape_meas_nterm; TIGR02675 281090000738 Phage protein Gp19/Gp15/Gp42; Region: Phage_Gp19; pfam09355 281090000739 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 281090000740 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 281090000741 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 281090000742 Phage terminase large subunit; Region: Terminase_3; cl12054 281090000743 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 281090000744 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 281090000745 Protein of unknown function (DUF4244); Region: DUF4244; pfam14029 281090000746 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 281090000747 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 281090000748 active site 281090000749 metal binding site [ion binding]; metal-binding site 281090000750 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cl11986 281090000751 domain I; other site 281090000752 phosphate binding site [ion binding]; other site 281090000753 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 281090000754 domain II; other site 281090000755 domain III; other site 281090000756 nucleotide binding site [chemical binding]; other site 281090000757 DNA binding groove [nucleotide binding] 281090000758 catalytic site [active] 281090000759 domain IV; other site 281090000760 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 281090000761 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 281090000762 thymidylate kinase; Validated; Region: tmk; PRK00698 281090000763 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 281090000764 TMP-binding site; other site 281090000765 ATP-binding site [chemical binding]; other site 281090000766 DNA polymerase III subunit delta'; Validated; Region: PRK07940 281090000767 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 281090000768 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 281090000769 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 281090000770 mycofactocin system transcriptional regulator; Region: mycofact_TetR; TIGR03968 281090000771 Helix-turn-helix domains; Region: HTH; cl00088 281090000772 Protein of unknown function (DUF3018); Region: DUF3018; pfam11455 281090000773 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 281090000774 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 281090000775 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090000776 NAD(P) binding site [chemical binding]; other site 281090000777 active site 281090000778 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; cl00062 281090000779 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 281090000780 non-specific DNA binding site [nucleotide binding]; other site 281090000781 salt bridge; other site 281090000782 sequence-specific DNA binding site [nucleotide binding]; other site 281090000783 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 281090000784 Domain of unknown function (DUF955); Region: DUF955; cl01076 281090000785 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 281090000786 Phosphoenolpyruvate carboxykinase; Region: PEPCK; pfam00821 281090000787 active site 281090000788 substrate-binding site [chemical binding]; other site 281090000789 metal-binding site [ion binding] 281090000790 GTP binding site [chemical binding]; other site 281090000791 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 281090000792 multidrug transporter membrane component/ATP-binding component; Provisional; Region: PRK10522 281090000793 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 281090000794 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 281090000795 Walker A/P-loop; other site 281090000796 ATP binding site [chemical binding]; other site 281090000797 Q-loop/lid; other site 281090000798 ABC transporter signature motif; other site 281090000799 Walker B; other site 281090000800 D-loop; other site 281090000801 H-loop/switch region; other site 281090000802 Sensors of blue-light using FAD; Region: BLUF; cl04855 281090000803 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 281090000804 non-specific DNA binding site [nucleotide binding]; other site 281090000805 salt bridge; other site 281090000806 sequence-specific DNA binding site [nucleotide binding]; other site 281090000807 Integrase core domain; Region: rve; cl01316 281090000808 Integrase core domain; Region: rve_3; cl15866 281090000809 Helix-turn-helix domains; Region: HTH; cl00088 281090000810 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 281090000811 Integrase core domain; Region: rve; cl01316 281090000812 Predicted integral membrane protein (DUF2269); Region: DUF2269; cl02335 281090000813 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 281090000814 homopentamer interface [polypeptide binding]; other site 281090000815 active site 281090000816 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 281090000817 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 281090000818 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 281090000819 dimerization interface [polypeptide binding]; other site 281090000820 active site 281090000821 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 281090000822 Lumazine binding domain; Region: Lum_binding; pfam00677 281090000823 Lumazine binding domain; Region: Lum_binding; pfam00677 281090000824 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 281090000825 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 281090000826 catalytic motif [active] 281090000827 Zn binding site [ion binding]; other site 281090000828 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 281090000829 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cl00200 281090000830 amphipathic channel; other site 281090000831 Asn-Pro-Ala signature motifs; other site 281090000832 glycerol kinase; Provisional; Region: glpK; PRK00047 281090000833 Cellulomonas sp. glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_CsGK_like; cd07789 281090000834 N- and C-terminal domain interface [polypeptide binding]; other site 281090000835 putative active site [active] 281090000836 putative MgATP binding site [chemical binding]; other site 281090000837 catalytic site [active] 281090000838 metal binding site [ion binding]; metal-binding site 281090000839 putative homotetramer interface [polypeptide binding]; other site 281090000840 putative glycerol binding site [chemical binding]; other site 281090000841 homodimer interface [polypeptide binding]; other site 281090000842 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 281090000843 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 281090000844 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 281090000845 active site 281090000846 HIGH motif; other site 281090000847 dimer interface [polypeptide binding]; other site 281090000848 KMSKS motif; other site 281090000849 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 281090000850 putative active site [active] 281090000851 putative DNA binding site [nucleotide binding]; other site 281090000852 putative phosphate binding site [ion binding]; other site 281090000853 putative catalytic site [active] 281090000854 metal binding site A [ion binding]; metal-binding site 281090000855 putative AP binding site [nucleotide binding]; other site 281090000856 putative metal binding site B [ion binding]; other site 281090000857 Domain of unknown function (DUF4190); Region: DUF4190; pfam13828 281090000858 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 281090000859 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 281090000860 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK08205 281090000861 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090000862 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 281090000863 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 281090000864 putative Iron-sulfur protein interface [polypeptide binding]; other site 281090000865 putative proximal heme binding site [chemical binding]; other site 281090000866 putative SdhC-like subunit interface [polypeptide binding]; other site 281090000867 putative distal heme binding site [chemical binding]; other site 281090000868 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 281090000869 putative Iron-sulfur protein interface [polypeptide binding]; other site 281090000870 putative proximal heme binding site [chemical binding]; other site 281090000871 putative SdhD-like interface [polypeptide binding]; other site 281090000872 putative distal heme binding site [chemical binding]; other site 281090000873 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 281090000874 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 281090000875 Substrate binding site; other site 281090000876 Cupin domain; Region: Cupin_2; cl09118 281090000877 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 281090000878 Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea; Region: PBP1_BmpA_PnrA_like; cd06354 281090000879 ligand binding site [chemical binding]; other site 281090000880 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 281090000881 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 hexoses...; Region: ABC_Carb_Monos_I; cd03216 281090000882 Walker A/P-loop; other site 281090000883 ATP binding site [chemical binding]; other site 281090000884 Q-loop/lid; other site 281090000885 ABC transporter signature motif; other site 281090000886 Walker B; other site 281090000887 D-loop; other site 281090000888 H-loop/switch region; other site 281090000889 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 281090000890 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 281090000891 TM-ABC transporter signature motif; other site 281090000892 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 281090000893 TM-ABC transporter signature motif; other site 281090000894 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 281090000895 active site 281090000896 catalytic motif [active] 281090000897 Zn binding site [ion binding]; other site 281090000898 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 281090000899 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 281090000900 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 281090000901 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; cl06734 281090000902 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 281090000903 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 281090000904 active site 281090000905 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 281090000906 active site 281090000907 phosphorylation site [posttranslational modification] 281090000908 PTS_IIB_ascorbate: subunit IIB of enzyme II (EII) of the L-ascorbate-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII is an L-ascorbate-specific permease with two cytoplasmic subunits (IIA and IIB) and a...; Region: PTS_IIB_ascorbate; cd05563 281090000909 P-loop; other site 281090000910 active site 281090000911 phosphorylation site [posttranslational modification] 281090000912 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 281090000913 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 281090000914 active site 281090000915 substrate binding site [chemical binding]; other site 281090000916 metal binding site [ion binding]; metal-binding site 281090000917 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 281090000918 flavoprotein disulfide reductase; Reviewed; Region: PRK07845 281090000919 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 281090000920 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 281090000921 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 281090000922 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 281090000923 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 281090000924 ATP-grasp domain; Region: ATP-grasp_4; cl03087 281090000925 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 281090000926 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 281090000927 carboxyltransferase (CT) interaction site; other site 281090000928 biotinylation site [posttranslational modification]; other site 281090000929 Maf-like protein; Region: Maf; pfam02545 281090000930 Nucleotide binding protein Maf. Maf has been implicated in inhibition of septum formation in eukaryotes, bacteria and archaea, but homologs in B.subtilis and S.cerevisiae are nonessential for cell division. Maf has been predicted to be a nucleotide- or...; Region: Maf; cd00555 281090000931 active site 281090000932 dimer interface [polypeptide binding]; other site 281090000933 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 281090000934 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 281090000935 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 281090000936 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 281090000937 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 281090000938 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 281090000939 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 281090000940 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 281090000941 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 281090000942 GtrA-like protein; Region: GtrA; cl00971 281090000943 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 281090000944 ATP-grasp domain; Region: ATP-grasp_4; cl03087 281090000945 AIR carboxylase; Region: AIRC; cl00310 281090000946 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 281090000947 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 281090000948 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 281090000949 NADP binding site [chemical binding]; other site 281090000950 active site 281090000951 putative substrate binding site [chemical binding]; other site 281090000952 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 281090000953 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 281090000954 NAD binding site [chemical binding]; other site 281090000955 substrate binding site [chemical binding]; other site 281090000956 homodimer interface [polypeptide binding]; other site 281090000957 active site 281090000958 Cupin domain; Region: Cupin_2; cl09118 281090000959 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 281090000960 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 281090000961 substrate binding site; other site 281090000962 tetramer interface; other site 281090000963 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 281090000964 Probable Catalytic site; other site 281090000965 metal-binding site 281090000966 UDP-glucose 4-epimerase (G4E), subgroup 5, extended (e) SDRs; Region: UDP_G4E_5_SDR_e; cd05264 281090000967 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 281090000968 putative NAD(P) binding site [chemical binding]; other site 281090000969 active site 281090000970 putative substrate binding site [chemical binding]; other site 281090000971 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 281090000972 active site 281090000973 Protein of unknown function (DUF616); Region: DUF616; pfam04765 281090000974 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 281090000975 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 281090000976 Walker A/P-loop; other site 281090000977 ATP binding site [chemical binding]; other site 281090000978 Q-loop/lid; other site 281090000979 ABC transporter signature motif; other site 281090000980 Walker B; other site 281090000981 D-loop; other site 281090000982 H-loop/switch region; other site 281090000983 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 281090000984 putative carbohydrate binding site [chemical binding]; other site 281090000985 ABC-2 type transporter; Region: ABC2_membrane; cl11417 281090000986 CH-type (Chalaropsis-type) lysozymes represent one of four functionally-defined classes of peptidoglycan hydrolases (also referred to as endo-N-acetylmuramidases) that cleave bacterial cell wall peptidoglycans. CH-type lysozymes exhibit both lysozyme; Region: GH25_CH-type; cd06412 281090000987 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 281090000988 active site 281090000989 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 281090000990 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 281090000991 active site 281090000992 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 281090000993 homodimer interface [polypeptide binding]; other site 281090000994 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090000995 UDP-N-acetylglucosamine 4,6-dehydratase/5-epimerase; Region: FnlA; TIGR04130 281090000996 NAD(P) binding site [chemical binding]; other site 281090000997 active site 281090000998 Polysaccharide biosynthesis protein C-terminal; Region: Polysacc_syn_2C; pfam08485 281090000999 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 281090001000 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 281090001001 NADP binding site [chemical binding]; other site 281090001002 active site 281090001003 putative substrate binding site [chemical binding]; other site 281090001004 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 281090001005 Uncharacterized conserved protein (DUF2304); Region: DUF2304; cl01034 281090001006 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 281090001007 Ligand binding site; other site 281090001008 Putative Catalytic site; other site 281090001009 DXD motif; other site 281090001010 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 281090001011 Probable Catalytic site; other site 281090001012 O-Antigen ligase; Region: Wzy_C; cl04850 281090001013 Phosphomannose isomerase type I; Region: PMI_typeI; cl15429 281090001014 mannose-6-phosphate isomerase; Provisional; Region: PRK15131 281090001015 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 281090001016 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090001017 NAD(P) binding site [chemical binding]; other site 281090001018 active site 281090001019 Transcription factor WhiB; Region: Whib; pfam02467 281090001020 Immunoglobulin-like fold, Plexins, Transcription factors (IPT). IPTs are also known as Transcription factor ImmunoGlobin (TIG) domains. They are present in intracellular transcription factors, cell surface receptors (such as plexins and scatter factor...; Region: IPT; cl15674 281090001021 NlpC/P60 family; Region: NLPC_P60; cl11438 281090001022 Protein of unknown function (DUF3499); Region: DUF3499; pfam12005 281090001023 phosphomannomutase/phosphoglucomutase; Reviewed; Region: manB; PRK09542 281090001024 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 281090001025 active site 281090001026 substrate binding site [chemical binding]; other site 281090001027 metal binding site [ion binding]; metal-binding site 281090001028 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 281090001029 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 281090001030 active site 281090001031 phosphorylation site [posttranslational modification] 281090001032 intermolecular recognition site; other site 281090001033 dimerization interface [polypeptide binding]; other site 281090001034 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 281090001035 DNA binding site [nucleotide binding] 281090001036 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 281090001037 dimerization interface [polypeptide binding]; other site 281090001038 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 281090001039 dimer interface [polypeptide binding]; other site 281090001040 phosphorylation site [posttranslational modification] 281090001041 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 281090001042 ATP binding site [chemical binding]; other site 281090001043 Mg2+ binding site [ion binding]; other site 281090001044 G-X-G motif; other site 281090001045 lipoprotein LpqB; Provisional; Region: PRK13615 281090001046 Sporulation and spore germination; Region: Germane; cl11253 281090001047 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 281090001048 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 281090001049 active site 281090001050 RaiA ('ribosome-associated inhibitor A', also known as Protein Y (PY), YfiA, and SpotY, is a stress-response protein that binds the ribosomal subunit interface and arrests translation by interfering with aminoacyl-tRNA binding to the ribosomal A site; Region: RaiA; cd00552 281090001051 30S subunit binding site; other site 281090001052 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 281090001053 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 281090001054 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 281090001055 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 281090001056 nucleotide binding region [chemical binding]; other site 281090001057 Protein of unknown function (DUF2871); Region: DUF2871; pfam11070 281090001058 Helix-turn-helix domains; Region: HTH; cl00088 281090001059 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 281090001060 Integrase core domain; Region: rve; cl01316 281090001061 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 281090001062 Transglycosylase; Region: Transgly; cl07896 281090001063 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 281090001064 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 281090001065 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 281090001066 Conserved protein containing a Zn-ribbon-like motif, possibly RNA-binding [General function prediction only]; Region: COG5516 281090001067 CGNR zinc finger; Region: zf-CGNR; pfam11706 281090001068 Domain of unknown function (DUF1905); Region: DUF1905; pfam08922 281090001069 transposase; Provisional; Region: PRK06526 281090001070 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 281090001071 Walker A motif; other site 281090001072 ATP binding site [chemical binding]; other site 281090001073 Walker B motif; other site 281090001074 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 281090001075 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090001076 active site 281090001077 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 281090001078 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 281090001079 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 281090001080 Walker A/P-loop; other site 281090001081 ATP binding site [chemical binding]; other site 281090001082 Q-loop/lid; other site 281090001083 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 281090001084 ABC transporter signature motif; other site 281090001085 Walker B; other site 281090001086 D-loop; other site 281090001087 H-loop/switch region; other site 281090001088 CTP synthetase; Validated; Region: pyrG; PRK05380 281090001089 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 281090001090 Catalytic site [active] 281090001091 active site 281090001092 UTP binding site [chemical binding]; other site 281090001093 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 281090001094 active site 281090001095 putative oxyanion hole; other site 281090001096 catalytic triad [active] 281090001097 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 281090001098 dimer interface [polypeptide binding]; other site 281090001099 ADP-ribose binding site [chemical binding]; other site 281090001100 active site 281090001101 nudix motif; other site 281090001102 metal binding site [ion binding]; metal-binding site 281090001103 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 281090001104 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 281090001105 DNA binding site [nucleotide binding] 281090001106 Int/Topo IB signature motif; other site 281090001107 active site 281090001108 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 281090001109 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 281090001110 P-loop; other site 281090001111 Magnesium ion binding site [ion binding]; other site 281090001112 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 281090001113 Magnesium ion binding site [ion binding]; other site 281090001114 ScpA/B protein; Region: ScpA_ScpB; cl00598 281090001115 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 281090001116 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 281090001117 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 281090001118 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 281090001119 active site 281090001120 prephenate dehydrogenase; Validated; Region: PRK06545 281090001121 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090001122 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 281090001123 cytidylate kinase; Provisional; Region: cmk; PRK00023 281090001124 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 281090001125 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 281090001126 CMP-binding site; other site 281090001127 The sites determining sugar specificity; other site 281090001128 GTP-binding protein Der; Reviewed; Region: PRK03003 281090001129 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 281090001130 G1 box; other site 281090001131 GTP/Mg2+ binding site [chemical binding]; other site 281090001132 Switch I region; other site 281090001133 G2 box; other site 281090001134 Switch II region; other site 281090001135 G3 box; other site 281090001136 G4 box; other site 281090001137 G5 box; other site 281090001138 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 281090001139 G1 box; other site 281090001140 GTP/Mg2+ binding site [chemical binding]; other site 281090001141 Switch I region; other site 281090001142 G2 box; other site 281090001143 G3 box; other site 281090001144 Switch II region; other site 281090001145 G4 box; other site 281090001146 G5 box; other site 281090001147 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 281090001148 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 281090001149 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 281090001150 dimer interface [polypeptide binding]; other site 281090001151 conserved gate region; other site 281090001152 putative PBP binding loops; other site 281090001153 ABC-ATPase subunit interface; other site 281090001154 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 281090001155 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 281090001156 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 281090001157 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 281090001158 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 281090001159 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 281090001160 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 281090001161 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 281090001162 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 281090001163 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 281090001164 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 281090001165 active site 281090001166 tetramer interface; other site 281090001167 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 281090001168 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 281090001169 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 281090001170 dimerization interface [polypeptide binding]; other site 281090001171 putative DNA binding site [nucleotide binding]; other site 281090001172 putative Zn2+ binding site [ion binding]; other site 281090001173 Helix-turn-helix domains; Region: HTH; cl00088 281090001174 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 281090001175 Integrase core domain; Region: rve; cl01316 281090001176 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 281090001177 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 281090001178 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 281090001179 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 281090001180 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 281090001181 dimer interface [polypeptide binding]; other site 281090001182 motif 1; other site 281090001183 active site 281090001184 motif 2; other site 281090001185 motif 3; other site 281090001186 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 281090001187 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 281090001188 putative tRNA-binding site [nucleotide binding]; other site 281090001189 B3/4 domain; Region: B3_4; cl11458 281090001190 tRNA synthetase B5 domain; Region: B5; cl08394 281090001191 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 281090001192 dimer interface [polypeptide binding]; other site 281090001193 motif 1; other site 281090001194 motif 3; other site 281090001195 motif 2; other site 281090001196 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 281090001197 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 281090001198 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090001199 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 281090001200 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 281090001201 heterotetramer interface [polypeptide binding]; other site 281090001202 active site pocket [active] 281090001203 cleavage site 281090001204 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 281090001205 homohexameric interface [polypeptide binding]; other site 281090001206 feedback inhibition sensing region; other site 281090001207 nucleotide binding site [chemical binding]; other site 281090001208 N-acetyl-L-glutamate binding site [chemical binding]; other site 281090001209 acetylornithine aminotransferase; Provisional; Region: argD; PRK03244 281090001210 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 281090001211 inhibitor-cofactor binding pocket; inhibition site 281090001212 pyridoxal 5'-phosphate binding site [chemical binding]; other site 281090001213 catalytic residue [active] 281090001214 ornithine carbamoyltransferase; Provisional; Region: PRK00779 281090001215 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 281090001216 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090001217 argininosuccinate lyase; Provisional; Region: PRK00855 281090001218 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 281090001219 active sites [active] 281090001220 tetramer interface [polypeptide binding]; other site 281090001221 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 281090001222 active site 281090001223 DNA binding site [nucleotide binding] 281090001224 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 281090001225 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 281090001226 active site 281090001227 HIGH motif; other site 281090001228 dimer interface [polypeptide binding]; other site 281090001229 KMSKS motif; other site 281090001230 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 281090001231 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 281090001232 putative ADP-binding pocket [chemical binding]; other site 281090001233 hemolysin TlyA family protein; Region: tly; TIGR00478 281090001234 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 281090001235 FliW protein; Region: FliW; cl00740 281090001236 flagellar hook-associated protein FlgL; Validated; Region: flgL; PRK07701 281090001237 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 281090001238 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 281090001239 FlgN protein; Region: FlgN; cl09176 281090001240 RNA polymerase sigma factor, FliA/WhiG family; Region: FliA_WhiG; TIGR02479 281090001241 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 281090001242 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 281090001243 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 281090001244 DNA binding residues [nucleotide binding] 281090001245 flagellin; Provisional; Region: PRK12804 281090001246 Bacterial flagellin N-terminal helical region; Region: Flagellin_N; pfam00669 281090001247 Bacterial flagellin C-terminal helical region; Region: Flagellin_C; pfam00700 281090001248 Flagellar protein FliS; Region: FliS; cl00654 281090001249 flagellar basal body rod protein FlgC; Reviewed; Region: flgC; PRK05681 281090001250 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 281090001251 Flagellar hook-basal body complex protein FliE; Region: FliE; cl09139 281090001252 Secretory protein of YscJ/FliF family; Region: YscJ_FliF; cl01907 281090001253 Flagellar M-ring protein C-terminal; Region: YscJ_FliF_C; pfam08345 281090001254 flagellar motor switch protein G; Validated; Region: fliG; PRK05686 281090001255 FliG C-terminal domain; Region: FliG_C; pfam01706 281090001256 flagellar protein export ATPase FliI; Region: FliI_clade1; TIGR03496 281090001257 Flagellum-specific ATPase/type III secretory pathway virulence-related protein. This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they...; Region: ATPase_flagellum-secretory_path_III; cd01136 281090001258 Walker A motif/ATP binding site; other site 281090001259 Walker B motif; other site 281090001260 Flagellar hook capping protein - N-terminal region; Region: FlgD; pfam03963 281090001261 flagellar hook protein FlgE; Validated; Region: flgE; PRK05682 281090001262 Flagellar basal body rod FlgEFG protein C-terminal; Region: Flg_bbr_C; cl15855 281090001263 Flagellar protein (FlbD); Region: FlbD; cl00683 281090001264 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 281090001265 Uncharacterized homolog of the cytoplasmic domain of flagellar protein FhlB [Function unknown]; Region: COG2257; cl15822 281090001266 Global regulator protein family; Region: CsrA; cl00670 281090001267 enoyl-CoA hydratase; Provisional; Region: PRK06563 281090001268 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 281090001269 substrate binding site [chemical binding]; other site 281090001270 oxyanion hole (OAH) forming residues; other site 281090001271 trimer interface [polypeptide binding]; other site 281090001272 Arginase family; Region: Arginase; cl00306 281090001273 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090001274 NAD(P) binding site [chemical binding]; other site 281090001275 active site 281090001276 Conserved domain frequently associated with peptide methionine sulfoxide reductase [Posttranslational modification, protein turnover, chaperones]; Region: COG0229 281090001277 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 281090001278 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 281090001279 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 281090001280 Helix-turn-helix domains; Region: HTH; cl00088 281090001281 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 281090001282 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 281090001283 putative substrate binding site [chemical binding]; other site 281090001284 putative ATP binding site [chemical binding]; other site 281090001285 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 281090001286 active site 281090001287 phosphorylation site [posttranslational modification] 281090001288 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 281090001289 P-loop; other site 281090001290 active site 281090001291 phosphorylation site [posttranslational modification] 281090001292 Phosphotransferase system IIC components, glucose/maltose/N-acetylglucosamine-specific [Carbohydrate transport and metabolism]; Region: PtsG; cl00557 281090001293 Phosphotransferase system, EIIC; Region: PTS_EIIC; pfam02378 281090001294 Transcriptional regulators [Transcription]; Region: GntR; COG1802 281090001295 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 281090001296 DNA-binding site [nucleotide binding]; DNA binding site 281090001297 Glycerate kinase family; Region: Gly_kinase; cl00841 281090001298 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 281090001299 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090001300 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 281090001301 dimer interface [polypeptide binding]; other site 281090001302 conserved gate region; other site 281090001303 putative PBP binding loops; other site 281090001304 ABC-ATPase subunit interface; other site 281090001305 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 281090001306 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 281090001307 dimer interface [polypeptide binding]; other site 281090001308 conserved gate region; other site 281090001309 ABC-ATPase subunit interface; other site 281090001310 Helix-turn-helix domains; Region: HTH; cl00088 281090001311 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 281090001312 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 281090001313 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 281090001314 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 281090001315 active site 281090001316 HIGH motif; other site 281090001317 KMSKS motif; other site 281090001318 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 281090001319 tRNA binding surface [nucleotide binding]; other site 281090001320 anticodon binding site; other site 281090001321 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 281090001322 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 281090001323 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 281090001324 active site 281090001325 HIGH motif; other site 281090001326 KMSK motif region; other site 281090001327 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 281090001328 tRNA binding surface [nucleotide binding]; other site 281090001329 anticodon binding site; other site 281090001330 Protein of unknown function (DUF2993); Region: DUF2993; pfam11209 281090001331 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 281090001332 H+ Antiporter protein; Region: 2A0121; TIGR00900 281090001333 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 281090001334 putative substrate translocation pore; other site 281090001335 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 281090001336 diaminopimelate decarboxylase; Region: lysA; TIGR01048 281090001337 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 281090001338 active site 281090001339 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 281090001340 substrate binding site [chemical binding]; other site 281090001341 catalytic residues [active] 281090001342 dimer interface [polypeptide binding]; other site 281090001343 homoserine dehydrogenase; Provisional; Region: PRK06349 281090001344 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090001345 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 281090001346 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 281090001347 threonine synthase; Reviewed; Region: PRK06721 281090001348 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 281090001349 homodimer interface [polypeptide binding]; other site 281090001350 pyridoxal 5'-phosphate binding site [chemical binding]; other site 281090001351 catalytic residue [active] 281090001352 homoserine kinase; Provisional; Region: PRK01212 281090001353 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 281090001354 Transcription termination factor [Transcription]; Region: Rho; COG1158 281090001355 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 281090001356 RNA binding site [nucleotide binding]; other site 281090001357 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 281090001358 multimer interface [polypeptide binding]; other site 281090001359 Walker A motif; other site 281090001360 ATP binding site [chemical binding]; other site 281090001361 Walker B motif; other site 281090001362 peptide chain release factor 1; Validated; Region: prfA; PRK00591 281090001363 RF-1 domain; Region: RF-1; cl02875 281090001364 RF-1 domain; Region: RF-1; cl02875 281090001365 serine O-acetyltransferase; Region: cysE; TIGR01172 281090001366 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 281090001367 trimer interface [polypeptide binding]; other site 281090001368 active site 281090001369 substrate binding site [chemical binding]; other site 281090001370 CoA binding site [chemical binding]; other site 281090001371 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 281090001372 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090001373 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 281090001374 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 281090001375 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 281090001376 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 281090001377 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 281090001378 Mg++ binding site [ion binding]; other site 281090001379 putative catalytic motif [active] 281090001380 substrate binding site [chemical binding]; other site 281090001381 ATP synthase A chain; Region: ATP-synt_A; cl00413 281090001382 ATP synthase subunit C; Region: ATP-synt_C; cl00466 281090001383 Plant ATP synthase F0; Region: YMF19; cl07975 281090001384 ATP synthase B/B' CF(0); Region: ATP-synt_B; pfam00430 281090001385 Plant ATP synthase F0; Region: YMF19; cl07975 281090001386 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 281090001387 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 281090001388 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 281090001389 beta subunit interaction interface [polypeptide binding]; other site 281090001390 Walker A motif; other site 281090001391 ATP binding site [chemical binding]; other site 281090001392 Walker B motif; other site 281090001393 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 281090001394 ATP synthase; Region: ATP-synt; cl00365 281090001395 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 281090001396 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 281090001397 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 281090001398 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 281090001399 alpha subunit interaction interface [polypeptide binding]; other site 281090001400 Walker A motif; other site 281090001401 ATP binding site [chemical binding]; other site 281090001402 Walker B motif; other site 281090001403 inhibitor binding site; inhibition site 281090001404 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 281090001405 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 281090001406 Adenylate kinase and related kinases [Nucleotide transport and metabolism]; Region: Adk; COG0563 281090001407 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 281090001408 active site 281090001409 Protein of unknown function (DUF328); Region: DUF328; cl01143 281090001410 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 281090001411 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 281090001412 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 281090001413 DNA binding site [nucleotide binding] 281090001414 active site 281090001415 Activation domain of S53 peptidases; Region: Pro-peptidase_S53; cd11377 281090001416 Peptidase domain in the S53 family; Region: Peptidases_S53; cd04056 281090001417 active site 281090001418 catalytic triad [active] 281090001419 calcium binding site [ion binding]; other site 281090001420 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 281090001421 NusA N-terminal domain; Region: NusA_N; pfam08529 281090001422 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 281090001423 RNA binding site [nucleotide binding]; other site 281090001424 homodimer interface [polypeptide binding]; other site 281090001425 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 281090001426 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 281090001427 G-X-X-G motif; other site 281090001428 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 281090001429 putative RNA binding cleft [nucleotide binding]; other site 281090001430 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 281090001431 translation initiation factor IF-2; Region: IF-2; TIGR00487 281090001432 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 281090001433 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 281090001434 G1 box; other site 281090001435 putative GEF interaction site [polypeptide binding]; other site 281090001436 GTP/Mg2+ binding site [chemical binding]; other site 281090001437 Switch I region; other site 281090001438 G2 box; other site 281090001439 G3 box; other site 281090001440 Switch II region; other site 281090001441 G4 box; other site 281090001442 G5 box; other site 281090001443 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 281090001444 Translation-initiation factor 2; Region: IF-2; pfam11987 281090001445 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 281090001446 Ribosome-binding factor A; Region: RBFA; cl00542 281090001447 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 281090001448 endonuclease III; Region: ENDO3c; smart00478 281090001449 minor groove reading motif; other site 281090001450 helix-hairpin-helix signature motif; other site 281090001451 substrate binding pocket [chemical binding]; other site 281090001452 active site 281090001453 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 281090001454 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090001455 Ketopantoate reductase [Coenzyme metabolism]; Region: ApbA; COG1893 281090001456 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 281090001457 Uncharacterized proteins of the AP superfamily [General function prediction only]; Region: COG1524 281090001458 phosphonatase-like hydrolase; Region: PhnX-like; TIGR03351 281090001459 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 281090001460 motif II; other site 281090001461 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 281090001462 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 281090001463 DNA-binding site [nucleotide binding]; DNA binding site 281090001464 UTRA domain; Region: UTRA; cl01230 281090001465 Helix-turn-helix domains; Region: HTH; cl00088 281090001466 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK03287 281090001467 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of specific...; Region: PseudoU_synth_EcTruB; cd02573 281090001468 RNA binding site [nucleotide binding]; other site 281090001469 active site 281090001470 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 281090001471 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 281090001472 active site 281090001473 Riboflavin kinase; Region: Flavokinase; cl03312 281090001474 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 281090001475 putative substrate translocation pore; other site 281090001476 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 281090001477 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 281090001478 heme ABC transporter, heme-binding protein isdE; Region: IsdE; TIGR03659 281090001479 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 281090001480 intersubunit interface [polypeptide binding]; other site 281090001481 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 281090001482 sialate_O-acetylesterase_like subfamily of the SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: sialate_O-acetylesterase_like2; cd01828 281090001483 active site 281090001484 catalytic triad [active] 281090001485 oxyanion hole [active] 281090001486 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 281090001487 putative ADP-ribose binding site [chemical binding]; other site 281090001488 putative active site [active] 281090001489 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; cl00846 281090001490 putative homotetramer interface [polypeptide binding]; other site 281090001491 putative homodimer interface [polypeptide binding]; other site 281090001492 putative allosteric switch controlling residues; other site 281090001493 putative metal binding site [ion binding]; other site 281090001494 putative homodimer-homodimer interface [polypeptide binding]; other site 281090001495 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 281090001496 metal-binding site [ion binding] 281090001497 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 281090001498 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 281090001499 metal-binding site [ion binding] 281090001500 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 281090001501 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 281090001502 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 281090001503 catalytic residues [active] 281090001504 catalytic nucleophile [active] 281090001505 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 281090001506 catalytic residues [active] 281090001507 DEAD-like helicases superfamily; Region: DEXDc; smart00487 281090001508 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 281090001509 ATP binding site [chemical binding]; other site 281090001510 putative Mg++ binding site [ion binding]; other site 281090001511 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 281090001512 nucleotide binding region [chemical binding]; other site 281090001513 ATP-binding site [chemical binding]; other site 281090001514 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 281090001515 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 281090001516 active site 281090001517 phosphorylation site [posttranslational modification] 281090001518 intermolecular recognition site; other site 281090001519 dimerization interface [polypeptide binding]; other site 281090001520 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 281090001521 DNA binding residues [nucleotide binding] 281090001522 Histidine kinase; Region: HisKA_3; pfam07730 281090001523 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 281090001524 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 281090001525 active site 281090001526 ADP/pyrophosphate binding site [chemical binding]; other site 281090001527 dimerization interface [polypeptide binding]; other site 281090001528 allosteric effector site; other site 281090001529 fructose-1,6-bisphosphate binding site; other site 281090001530 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 281090001531 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 281090001532 putative NAD(P) binding site [chemical binding]; other site 281090001533 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 281090001534 dimerization interface [polypeptide binding]; other site 281090001535 AAA-like domain; Region: AAA_10; pfam12846 281090001536 NlpC/P60 family; Region: NLPC_P60; cl11438 281090001537 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 281090001538 Walker B motif; other site 281090001539 Relaxase/Mobilisation nuclease domain; Region: Relaxase; cl01584 281090001540 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 281090001541 Endopygalactorunase [Cell envelope biogenesis, outer membrane]; Region: PGU1; COG5434 281090001542 Probable polygalacturonase At3g15720; Region: PLN03003; cl14103 281090001543 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 281090001544 putative dimer interface [polypeptide binding]; other site 281090001545 Helix-turn-helix domains; Region: HTH; cl00088 281090001546 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 281090001547 Integrase core domain; Region: rve; cl01316 281090001548 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cl10448 281090001549 active site 281090001550 Protein of unknown function DUF262; Region: DUF262; cl14890 281090001551 trigger factor; Provisional; Region: tig; PRK01490 281090001552 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 281090001553 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 281090001554 Tetratrico peptide repeat; Region: TPR_5; pfam12688 281090001555 Clp protease; Region: CLP_protease; pfam00574 281090001556 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 281090001557 oligomer interface [polypeptide binding]; other site 281090001558 active site residues [active] 281090001559 ATP-dependent Clp protease proteolytic subunit; Reviewed; Region: PRK12553 281090001560 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 281090001561 oligomer interface [polypeptide binding]; other site 281090001562 active site residues [active] 281090001563 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 281090001564 ClpX C4-type zinc finger; Region: zf-C4_ClpX; cl05964 281090001565 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 281090001566 Walker A motif; other site 281090001567 ATP binding site [chemical binding]; other site 281090001568 Walker B motif; other site 281090001569 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 281090001570 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 281090001571 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 281090001572 Coenzyme A binding pocket [chemical binding]; other site 281090001573 valyl-tRNA synthetase; Reviewed; Region: valS; PRK13208 281090001574 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 281090001575 active site 281090001576 HIGH motif; other site 281090001577 nucleotide binding site [chemical binding]; other site 281090001578 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 281090001579 active site 281090001580 KMSKS motif; other site 281090001581 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 281090001582 tRNA binding surface [nucleotide binding]; other site 281090001583 anticodon binding site; other site 281090001584 mycofactocin system transcriptional regulator; Region: mycofact_TetR; TIGR03968 281090001585 Helix-turn-helix domains; Region: HTH; cl00088 281090001586 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 281090001587 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 281090001588 HIGH motif; other site 281090001589 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 281090001590 active site 281090001591 KMSKS motif; other site 281090001592 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 281090001593 tRNA binding surface [nucleotide binding]; other site 281090001594 anticodon binding site; other site 281090001595 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 281090001596 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 281090001597 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 281090001598 Protein of unknown function (DUF4233); Region: DUF4233; pfam14017 281090001599 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 281090001600 active site 281090001601 multimer interface [polypeptide binding]; other site 281090001602 Vitamin K epoxide reductase family; Region: VKOR; cl01729 281090001603 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 281090001604 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 281090001605 homodimer interface [polypeptide binding]; other site 281090001606 oligonucleotide binding site [chemical binding]; other site 281090001607 Protein of unknown function (DUF4031); Region: DUF4031; pfam13223 281090001608 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 281090001609 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 281090001610 GTPase CgtA; Reviewed; Region: obgE; PRK12296 281090001611 GTP1/OBG; Region: GTP1_OBG; pfam01018 281090001612 Obg GTPase; Region: Obg; cd01898 281090001613 G1 box; other site 281090001614 GTP/Mg2+ binding site [chemical binding]; other site 281090001615 Switch I region; other site 281090001616 G2 box; other site 281090001617 G3 box; other site 281090001618 Switch II region; other site 281090001619 G4 box; other site 281090001620 G5 box; other site 281090001621 Domain of unknown function (DUF1967); Region: DUF1967; cl07779 281090001622 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 281090001623 homotetrameric interface [polypeptide binding]; other site 281090001624 putative phosphate binding site [ion binding]; other site 281090001625 putative allosteric binding site; other site 281090001626 nucleotide binding site [chemical binding]; other site 281090001627 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 281090001628 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 281090001629 putative catalytic cysteine [active] 281090001630 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 281090001631 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 281090001632 active site 281090001633 (T/H)XGH motif; other site 281090001634 Oligomerisation domain; Region: Oligomerisation; cl00519 281090001635 Transcription factor zinc-finger; Region: zf-TFIIB; cl01565 281090001636 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 281090001637 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 281090001638 Major Facilitator Superfamily; Region: MFS_1; pfam07690 281090001639 putative substrate translocation pore; other site 281090001640 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 281090001641 YceI-like domain; Region: YceI; cl01001 281090001642 Protein of unknown function (DUF3097); Region: DUF3097; pfam11296 281090001643 Ferritin-CCC1, N-terminal ferritin-like diiron-binding domain; Region: Ferritin_CCC1_N; cd01044 281090001644 diiron binding motif [ion binding]; other site 281090001645 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_2; cd02433 281090001646 PAC2 family; Region: PAC2; cl00847 281090001647 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 281090001648 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 281090001649 active site 281090001650 motif I; other site 281090001651 motif II; other site 281090001652 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]; Region: GCD14; COG2519 281090001653 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 281090001654 S-adenosylmethionine binding site [chemical binding]; other site 281090001655 Predicted transcriptional regulator [Transcription]; Region: COG2378 281090001656 WYL domain; Region: WYL; cl14852 281090001657 Predicted transcriptional regulator [Transcription]; Region: COG2378 281090001658 WYL domain; Region: WYL; cl14852 281090001659 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 281090001660 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 281090001661 DEAD-like helicases superfamily; Region: DEXDc; smart00487 281090001662 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 281090001663 ATP binding site [chemical binding]; other site 281090001664 putative Mg++ binding site [ion binding]; other site 281090001665 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 281090001666 nucleotide binding region [chemical binding]; other site 281090001667 ATP-binding site [chemical binding]; other site 281090001668 rRNA-processing arch domain; Region: rRNA_proc-arch; pfam13234 281090001669 DSHCT (NUC185) domain; Region: DSHCT; pfam08148 281090001670 apolipoprotein N-acyltransferase; Region: lnt; TIGR00546 281090001671 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 281090001672 putative active site [active] 281090001673 catalytic triad [active] 281090001674 putative dimer interface [polypeptide binding]; other site 281090001675 Domain of unknown function (DUF4109); Region: DUF4109; pfam13397 281090001676 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 281090001677 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090001678 NAD(P) binding site [chemical binding]; other site 281090001679 active site 281090001680 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 281090001681 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 281090001682 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 281090001683 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 281090001684 ABC-2 type transporter; Region: ABC2_membrane; cl11417 281090001685 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 281090001686 dimerization interface [polypeptide binding]; other site 281090001687 putative DNA binding site [nucleotide binding]; other site 281090001688 putative Zn2+ binding site [ion binding]; other site 281090001689 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 281090001690 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 281090001691 FMN binding site [chemical binding]; other site 281090001692 active site 281090001693 catalytic residues [active] 281090001694 substrate binding site [chemical binding]; other site 281090001695 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK03007 281090001696 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 281090001697 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 281090001698 DNA primase; Validated; Region: dnaG; PRK05667 281090001699 CHC2 zinc finger; Region: zf-CHC2; cl15369 281090001700 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 281090001701 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 281090001702 active site 281090001703 metal binding site [ion binding]; metal-binding site 281090001704 interdomain interaction site; other site 281090001705 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 281090001706 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 281090001707 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 281090001708 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 281090001709 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 281090001710 dimer interface [polypeptide binding]; other site 281090001711 conserved gate region; other site 281090001712 ABC-ATPase subunit interface; other site 281090001713 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 281090001714 dimer interface [polypeptide binding]; other site 281090001715 conserved gate region; other site 281090001716 ABC-ATPase subunit interface; other site 281090001717 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 281090001718 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 281090001719 Walker A/P-loop; other site 281090001720 ATP binding site [chemical binding]; other site 281090001721 Q-loop/lid; other site 281090001722 ABC transporter signature motif; other site 281090001723 Walker B; other site 281090001724 D-loop; other site 281090001725 H-loop/switch region; other site 281090001726 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 281090001727 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 281090001728 Walker A/P-loop; other site 281090001729 ATP binding site [chemical binding]; other site 281090001730 Q-loop/lid; other site 281090001731 ABC transporter signature motif; other site 281090001732 Walker B; other site 281090001733 D-loop; other site 281090001734 H-loop/switch region; other site 281090001735 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 281090001736 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 281090001737 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 281090001738 Walker A/P-loop; other site 281090001739 ATP binding site [chemical binding]; other site 281090001740 Q-loop/lid; other site 281090001741 ABC transporter signature motif; other site 281090001742 Walker B; other site 281090001743 D-loop; other site 281090001744 H-loop/switch region; other site 281090001745 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090001746 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 281090001747 active site 281090001748 catalytic residues [active] 281090001749 metal binding site [ion binding]; metal-binding site 281090001750 Magnesium transporter NIPA; Region: Mg_trans_NIPA; pfam05653 281090001751 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; Region: GT1_UGDG_like; cd03817 281090001752 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 281090001753 putative ADP-binding pocket [chemical binding]; other site 281090001754 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 281090001755 nudix motif; other site 281090001756 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 281090001757 nudix motif; other site 281090001758 bifunctional 3'-5' exonuclease/DNA polymerase; Provisional; Region: PRK14975 281090001759 Family A polymerase primarily fills DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A; cd06444 281090001760 active site 281090001761 DNA binding site [nucleotide binding] 281090001762 catalytic site [active] 281090001763 Protein of unknown function (DUF1684); Region: DUF1684; cl01327 281090001764 Helix-turn-helix domains; Region: HTH; cl00088 281090001765 Protein of unknown function (DUF3145); Region: DUF3145; pfam11343 281090001766 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 281090001767 apolar tunnel; other site 281090001768 heme binding site [chemical binding]; other site 281090001769 dimerization interface [polypeptide binding]; other site 281090001770 Mechanosensitive ion channel; Region: MS_channel; pfam00924 281090001771 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 281090001772 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 281090001773 active site 281090001774 phosphorylation site [posttranslational modification] 281090001775 intermolecular recognition site; other site 281090001776 dimerization interface [polypeptide binding]; other site 281090001777 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 281090001778 DNA binding residues [nucleotide binding] 281090001779 dimerization interface [polypeptide binding]; other site 281090001780 Histidine kinase; Region: HisKA_3; pfam07730 281090001781 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 281090001782 ABC-2 type transporter; Region: ABC2_membrane; cl11417 281090001783 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 281090001784 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 281090001785 The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance. Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme...; Region: ABC_BcrA_bacitracin_resist; cd03268 281090001786 Walker A/P-loop; other site 281090001787 ATP binding site [chemical binding]; other site 281090001788 Q-loop/lid; other site 281090001789 ABC transporter signature motif; other site 281090001790 Walker B; other site 281090001791 D-loop; other site 281090001792 H-loop/switch region; other site 281090001793 aminopeptidase N, Streptomyces lividans type; Region: pepN_strep_liv; TIGR02412 281090001794 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_3; cd09602 281090001795 Zn binding site [ion binding]; other site 281090001796 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 281090001797 endonuclease VIII; Provisional; Region: PRK10445 281090001798 N-terminal domain of the actinomycetal Nei1 and related DNA glycosylases; Region: AcNei1_N; cd08970 281090001799 putative DNA binding site [nucleotide binding]; other site 281090001800 catalytic residue [active] 281090001801 putative H2TH interface [polypeptide binding]; other site 281090001802 putative catalytic residues [active] 281090001803 N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases; Region: FpgNei_N; cl03119 281090001804 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 281090001805 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 281090001806 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 281090001807 dimerization interface [polypeptide binding]; other site 281090001808 DPS ferroxidase diiron center [ion binding]; other site 281090001809 ion pore; other site 281090001810 proline/glycine betaine transporter; Provisional; Region: PRK10642 281090001811 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 281090001812 putative substrate translocation pore; other site 281090001813 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 281090001814 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 281090001815 active site 281090001816 Int/Topo IB signature motif; other site 281090001817 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 281090001818 Int/Topo IB signature motif; other site 281090001819 active site 281090001820 DNA binding site [nucleotide binding] 281090001821 Phosphate transporter family; Region: PHO4; cl00396 281090001822 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 281090001823 uracil transporter; Provisional; Region: PRK10720 281090001824 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 281090001825 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 281090001826 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 281090001827 Aspartase; Region: Aspartase; cd01357 281090001828 active sites [active] 281090001829 tetramer interface [polypeptide binding]; other site 281090001830 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 281090001831 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 281090001832 FAD binding domain; Region: FAD_binding_4; pfam01565 281090001833 glycolate oxidase, subunit GlcD; Region: glcD; TIGR00387 281090001834 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 281090001835 mycofactocin system transcriptional regulator; Region: mycofact_TetR; TIGR03968 281090001836 Helix-turn-helix domains; Region: HTH; cl00088 281090001837 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 281090001838 16S/18S rRNA binding site [nucleotide binding]; other site 281090001839 S13e-L30e interaction site [polypeptide binding]; other site 281090001840 25S rRNA binding site [nucleotide binding]; other site 281090001841 VanZ like family; Region: VanZ; cl01971 281090001842 guanosine pentaphosphate synthetase I/polynucleotide phosphorylase; Region: pppGpp_PNP; TIGR02696 281090001843 RNase PH-like 3'-5' exoribonucleases; Region: RNase_PH; cl03114 281090001844 oligomer interface [polypeptide binding]; other site 281090001845 RNA binding site [nucleotide binding]; other site 281090001846 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 281090001847 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 281090001848 RNase E interface [polypeptide binding]; other site 281090001849 trimer interface [polypeptide binding]; other site 281090001850 active site 281090001851 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 281090001852 putative nucleic acid binding region [nucleotide binding]; other site 281090001853 G-X-X-G motif; other site 281090001854 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 281090001855 RNA binding site [nucleotide binding]; other site 281090001856 domain interface; other site 281090001857 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_actino; TIGR03535 281090001858 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 281090001859 putative trimer interface [polypeptide binding]; other site 281090001860 putative CoA binding site [chemical binding]; other site 281090001861 M20 Peptidase actinobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_actinobac; cd05647 281090001862 Peptidase family M20/M25/M40; Region: Peptidase_M20; pfam01546 281090001863 metal binding site [ion binding]; metal-binding site 281090001864 putative dimer interface [polypeptide binding]; other site 281090001865 Protein of unknown function (DUF3117); Region: DUF3117; pfam11314 281090001866 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 281090001867 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 281090001868 S-adenosylmethionine binding site [chemical binding]; other site 281090001869 Domain of unknown function DUF59; Region: DUF59; cl00941 281090001870 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 281090001871 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 281090001872 Walker A motif; other site 281090001873 Protein of unknown function (DUF1003); Region: DUF1003; cl01831 281090001874 MgtE intracellular N domain; Region: MgtE_N; cl15244 281090001875 FOG: CBS domain [General function prediction only]; Region: COG0517 281090001876 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 281090001877 Aminopeptidase P, N-terminal domain; Region: AMP_N; cl08433 281090001878 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 on...; Region: Prolidase; cd01087 281090001879 active site 281090001880 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 281090001881 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 281090001882 catalytic residue [active] 281090001883 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 281090001884 DEAD-like helicases superfamily; Region: DEXDc; smart00487 281090001885 ATP binding site [chemical binding]; other site 281090001886 Mg++ binding site [ion binding]; other site 281090001887 motif III; other site 281090001888 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 281090001889 nucleotide binding region [chemical binding]; other site 281090001890 ATP-binding site [chemical binding]; other site 281090001891 tRNA-(MS[2]IO[6]A)-hydroxylase (MiaE)-like; Region: MiaE_2; pfam13794 281090001892 Protein of unknown function (DUF3107); Region: DUF3107; pfam11305 281090001893 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 281090001894 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 281090001895 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 281090001896 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 281090001897 double-strand break repair helicase AddA, alphaproteobacterial type; Region: addA_alphas; TIGR02784 281090001898 Family description; Region: UvrD_C_2; cl15862 281090001899 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 281090001900 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 281090001901 active site 281090001902 ATP binding site [chemical binding]; other site 281090001903 substrate binding site [chemical binding]; other site 281090001904 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 281090001905 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 281090001906 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 281090001907 putative NADH binding site [chemical binding]; other site 281090001908 putative active site [active] 281090001909 nudix motif; other site 281090001910 putative metal binding site [ion binding]; other site 281090001911 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 281090001912 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 281090001913 Family description; Region: UvrD_C_2; cl15862 281090001914 Uncharacterized conserved protein (DUF2342); Region: DUF2342; cl02183 281090001915 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 281090001916 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 281090001917 protein binding site [polypeptide binding]; other site 281090001918 Uncharacterized conserved protein [Function unknown]; Region: COG1615; cl09133 281090001919 Uncharacterized protein family (UPF0182); Region: UPF0182; pfam03699 281090001920 Response regulator receiver domain; Region: Response_reg; pfam00072 281090001921 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 281090001922 active site 281090001923 phosphorylation site [posttranslational modification] 281090001924 intermolecular recognition site; other site 281090001925 dimerization interface [polypeptide binding]; other site 281090001926 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 281090001927 Histidinol phosphatase and related hydrolases of the PHP family [Amino acid transport and metabolism / General function prediction only]; Region: HIS2; COG1387 281090001928 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 281090001929 active site 281090001930 phosphorylation site [posttranslational modification] 281090001931 intermolecular recognition site; other site 281090001932 dimerization interface [polypeptide binding]; other site 281090001933 Helix-turn-helix domains; Region: HTH; cl00088 281090001934 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 281090001935 Integrase core domain; Region: rve; cl01316 281090001936 Helix-turn-helix domains; Region: HTH; cl00088 281090001937 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 281090001938 Helix-turn-helix domains; Region: HTH; cl00088 281090001939 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 281090001940 Cysteine desulfurase (SufS)-like. This family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to cysteine desulfurase (SufS) and selenocysteine lyase. SufS...; Region: SufS_like; cd06453 281090001941 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 281090001942 catalytic residue [active] 281090001943 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 281090001944 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 281090001945 trimerization site [polypeptide binding]; other site 281090001946 active site 281090001947 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 281090001948 dimer interface [polypeptide binding]; other site 281090001949 conserved gate region; other site 281090001950 ABC-ATPase subunit interface; other site 281090001951 NMT1-like family; Region: NMT1_2; cl15260 281090001952 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 281090001953 DNA photolyase; Region: DNA_photolyase; pfam00875 281090001954 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 281090001955 FAD binding domain of DNA photolyase; Region: FAD_binding_7; pfam03441 281090001956 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 281090001957 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 281090001958 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 281090001959 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 281090001960 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 281090001961 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 281090001962 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 281090001963 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 281090001964 active site 281090001965 phosphorylation site [posttranslational modification] 281090001966 intermolecular recognition site; other site 281090001967 dimerization interface [polypeptide binding]; other site 281090001968 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 281090001969 DNA binding residues [nucleotide binding] 281090001970 dimerization interface [polypeptide binding]; other site 281090001971 Protein of unknown function (DUF418); Region: DUF418; cl12135 281090001972 Protein of unknown function (DUF418); Region: DUF418; cl12135 281090001973 Integral membrane protein TerC family; Region: TerC; cl10468 281090001974 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 281090001975 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 281090001976 substrate binding site [chemical binding]; other site 281090001977 ligand binding site [chemical binding]; other site 281090001978 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 281090001979 substrate binding site [chemical binding]; other site 281090001980 Arenavirus RNA polymerase; Region: Arena_RNA_pol; pfam06317 281090001981 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 281090001982 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 281090001983 hinge; other site 281090001984 active site 281090001985 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 281090001986 putative acyl-acceptor binding pocket; other site 281090001987 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 281090001988 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090001989 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 281090001990 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 281090001991 ATP-grasp domain; Region: ATP-grasp_4; cl03087 281090001992 Protein of unknown function (DUF3515); Region: DUF3515; pfam12028 281090001993 thiamine monophosphate kinase; Provisional; Region: PRK05731 281090001994 ThiL (Thiamine-monophosphate kinase) plays a dual role in de novo biosynthesis and in salvage of exogenous thiamine. Thiamine salvage occurs in two steps, with thiamine kinase catalyzing the formation of thiamine phosphate, and ThiL catalyzing the...; Region: ThiL; cd02194 281090001995 ATP binding site [chemical binding]; other site 281090001996 dimerization interface [polypeptide binding]; other site 281090001997 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 281090001998 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 281090001999 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 281090002000 generic binding surface II; other site 281090002001 ssDNA binding site; other site 281090002002 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 281090002003 ATP binding site [chemical binding]; other site 281090002004 putative Mg++ binding site [ion binding]; other site 281090002005 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 281090002006 nucleotide binding region [chemical binding]; other site 281090002007 ATP-binding site [chemical binding]; other site 281090002008 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 281090002009 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 281090002010 active site 281090002011 (T/H)XGH motif; other site 281090002012 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 281090002013 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 281090002014 ribonuclease III; Reviewed; Region: rnc; PRK00102 281090002015 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 281090002016 dimerization interface [polypeptide binding]; other site 281090002017 active site 281090002018 metal binding site [ion binding]; metal-binding site 281090002019 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 281090002020 dsRNA binding site [nucleotide binding]; other site 281090002021 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 281090002022 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 281090002023 DNA binding site [nucleotide binding] 281090002024 catalytic residue [active] 281090002025 H2TH interface [polypeptide binding]; other site 281090002026 putative catalytic residues [active] 281090002027 turnover-facilitating residue; other site 281090002028 intercalation triad [nucleotide binding]; other site 281090002029 8OG recognition residue [nucleotide binding]; other site 281090002030 putative reading head residues; other site 281090002031 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 281090002032 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 281090002033 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 281090002034 dimerization interface [polypeptide binding]; other site 281090002035 putative DNA binding site [nucleotide binding]; other site 281090002036 putative Zn2+ binding site [ion binding]; other site 281090002037 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 281090002038 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 281090002039 heme bH binding site [chemical binding]; other site 281090002040 Qi binding site; other site 281090002041 intrachain domain interface; other site 281090002042 heme bL binding site [chemical binding]; other site 281090002043 interchain domain interface [polypeptide binding]; other site 281090002044 Qo binding site; other site 281090002045 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 281090002046 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 281090002047 iron-sulfur cluster [ion binding]; other site 281090002048 [2Fe-2S] cluster binding site [ion binding]; other site 281090002049 Cytochrome c; Region: Cytochrom_C; cl11414 281090002050 Cytochrome c; Region: Cytochrom_C; cl11414 281090002051 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 281090002052 Subunit I/III interface [polypeptide binding]; other site 281090002053 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 281090002054 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 281090002055 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 281090002056 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 281090002057 Dak1 domain; Region: Dak1; pfam02733 281090002058 DAK2 domain; Region: Dak2; cl03685 281090002059 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cl00025 281090002060 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 281090002061 dimerization domain swap beta strand [polypeptide binding]; other site 281090002062 regulatory protein interface [polypeptide binding]; other site 281090002063 active site 281090002064 regulatory phosphorylation site [posttranslational modification]; other site 281090002065 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 281090002066 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 281090002067 pyridoxal 5'-phosphate binding site [chemical binding]; other site 281090002068 homodimer interface [polypeptide binding]; other site 281090002069 catalytic residue [active] 281090002070 Protein of unknown function (DUF1345); Region: DUF1345; cl01753 281090002071 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 281090002072 folate binding site [chemical binding]; other site 281090002073 NADP+ binding site [chemical binding]; other site 281090002074 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 281090002075 dimerization interface [polypeptide binding]; other site 281090002076 active site 281090002077 Uncharacterized conserved protein [Function unknown]; Region: COG0327 281090002078 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 281090002079 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 281090002080 Putative zinc ribbon domain; Region: DUF164; pfam02591 281090002081 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 281090002082 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 281090002083 active site 281090002084 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 281090002085 oligomerization interface [polypeptide binding]; other site 281090002086 active site 281090002087 metal binding site [ion binding]; metal-binding site 281090002088 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 281090002089 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 281090002090 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 281090002091 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14109 281090002092 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 281090002093 metal binding triad; other site 281090002094 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 281090002095 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 281090002096 metal binding triad; other site 281090002097 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 281090002098 Helix-turn-helix domains; Region: HTH; cl00088 281090002099 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 281090002100 Integrase core domain; Region: rve; cl01316 281090002101 glutamine synthetase, type I; Region: GlnA; TIGR00653 281090002102 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 281090002103 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 281090002104 RDD family; Region: RDD; cl00746 281090002105 Domain of unknown function (DUF4191); Region: DUF4191; pfam13829 281090002106 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 281090002107 lipoyl synthase; Provisional; Region: PRK05481 281090002108 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 281090002109 FeS/SAM binding site; other site 281090002110 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 281090002111 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 281090002112 E3 interaction surface; other site 281090002113 lipoyl attachment site [posttranslational modification]; other site 281090002114 e3 binding domain; Region: E3_binding; pfam02817 281090002115 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11857 281090002116 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 281090002117 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 281090002118 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 281090002119 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 281090002120 multifunctional aminopeptidase A; Provisional; Region: PRK00913 281090002121 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 281090002122 interface (dimer of trimers) [polypeptide binding]; other site 281090002123 Substrate-binding/catalytic site; other site 281090002124 Zn-binding sites [ion binding]; other site 281090002125 PAC2 family; Region: PAC2; cl00847 281090002126 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 281090002127 putative substrate translocation pore; other site 281090002128 RNA polymerase sigma factor SigB; Reviewed; Region: PRK07921 281090002129 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 281090002130 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 281090002131 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 281090002132 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 281090002133 DNA binding residues [nucleotide binding] 281090002134 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 281090002135 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 281090002136 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 281090002137 catalytic triad [active] 281090002138 sarcosine oxidase, alpha subunit family, heterotetrameric form; Region: soxA; TIGR01372 281090002139 glycerol-3-phosphate dehydrogenase, anaerobic, A subunit; Region: glycerol3P_GlpA; TIGR03377 281090002140 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; cl01093 281090002141 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 281090002142 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 281090002143 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 281090002144 inhibitor site; inhibition site 281090002145 active site 281090002146 dimer interface [polypeptide binding]; other site 281090002147 catalytic residue [active] 281090002148 Na+/H+ antiporter [Energy production and conversion]; Region: NhaC; COG1757 281090002149 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 281090002150 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 281090002151 non-specific DNA binding site [nucleotide binding]; other site 281090002152 salt bridge; other site 281090002153 sequence-specific DNA binding site [nucleotide binding]; other site 281090002154 Cupin domain; Region: Cupin_2; cl09118 281090002155 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 281090002156 alanine racemase; Reviewed; Region: alr; PRK00053 281090002157 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 281090002158 active site 281090002159 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 281090002160 dimer interface [polypeptide binding]; other site 281090002161 substrate binding site [chemical binding]; other site 281090002162 catalytic residues [active] 281090002163 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 281090002164 catalytic residue [active] 281090002165 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 281090002166 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 281090002167 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 281090002168 ATP binding site [chemical binding]; other site 281090002169 Mg2+ binding site [ion binding]; other site 281090002170 G-X-G motif; other site 281090002171 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 281090002172 anchoring element; other site 281090002173 dimer interface [polypeptide binding]; other site 281090002174 ATP binding site [chemical binding]; other site 281090002175 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 281090002176 active site 281090002177 metal binding site [ion binding]; metal-binding site 281090002178 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 281090002179 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 281090002180 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 281090002181 CAP-like domain; other site 281090002182 active site 281090002183 primary dimer interface [polypeptide binding]; other site 281090002184 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 281090002185 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 281090002186 Protein of unknown function (DUF3071); Region: DUF3071; pfam11268 281090002187 Domain of unknown function (DUF4193); Region: DUF4193; pfam13834 281090002188 Protein of unknown function (DUF3093); Region: DUF3093; pfam11292 281090002189 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 281090002190 trimer interface [polypeptide binding]; other site 281090002191 active site 281090002192 Protein of unknown function (DUF3710); Region: DUF3710; pfam12502 281090002193 Protein of unknown function (DUF3159); Region: DUF3159; pfam11361 281090002194 ATPase, P-type (transporting), HAD superfamily, subfamily IC; Region: ATPase_P-type; TIGR01494 281090002195 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 281090002196 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 281090002197 aconitate hydratase; Validated; Region: PRK09277 281090002198 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 281090002199 substrate binding site [chemical binding]; other site 281090002200 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 281090002201 ligand binding site [chemical binding]; other site 281090002202 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 281090002203 substrate binding site [chemical binding]; other site 281090002204 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 281090002205 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 281090002206 TPP-binding site; other site 281090002207 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 281090002208 PYR/PP interface [polypeptide binding]; other site 281090002209 dimer interface [polypeptide binding]; other site 281090002210 TPP binding site [chemical binding]; other site 281090002211 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 281090002212 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 281090002213 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 281090002214 substrate binding site [chemical binding]; other site 281090002215 oxyanion hole (OAH) forming residues; other site 281090002216 trimer interface [polypeptide binding]; other site 281090002217 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090002218 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 281090002219 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 281090002220 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 281090002221 acetyl-CoA acetyltransferases; Region: AcCoA-C-Actrans; TIGR01930 281090002222 dimer interface [polypeptide binding]; other site 281090002223 active site 281090002224 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 281090002225 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 281090002226 putative active site [active] 281090002227 catalytic site [active] 281090002228 putative substrate binding site [chemical binding]; other site 281090002229 HRDC domain; Region: HRDC; cl02578 281090002230 Protein of unknown function (DUF3000); Region: DUF3000; pfam11452 281090002231 Fe-S metabolism associated domain; Region: SufE; cl00951 281090002232 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 281090002233 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 it...; Region: TST_Repeat_1; cd01448 281090002234 active site residue [active] 281090002235 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 281090002236 active site residue [active] 281090002237 AFG1-like ATPase; Region: AFG1_ATPase; pfam03969 281090002238 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 281090002239 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 281090002240 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_17; cd04676 281090002241 nudix motif; other site 281090002242 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 281090002243 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK12305 281090002244 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 281090002245 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 281090002246 active site 281090002247 dimer interface [polypeptide binding]; other site 281090002248 motif 1; other site 281090002249 motif 2; other site 281090002250 motif 3; other site 281090002251 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 281090002252 anticodon binding site; other site 281090002253 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 281090002254 nucleotide binding site/active site [active] 281090002255 HIT family signature motif; other site 281090002256 catalytic residue [active] 281090002257 pyridoxamine kinase; Validated; Region: PRK05756 281090002258 Pyridoxal kinase plays a key role in the synthesis of the active coenzyme pyridoxal-5'-phosphate (PLP), by catalyzing the phosphorylation of the precursor vitamin B6 in the presence of Zn2+ and ATP. Mammals are unable to synthesize PLP de novo and...; Region: pyridoxal_pyridoxamine_kinase; cd01173 281090002259 dimer interface [polypeptide binding]; other site 281090002260 pyridoxal binding site [chemical binding]; other site 281090002261 ATP binding site [chemical binding]; other site 281090002262 transcriptional regulatory protein PtsJ; Provisional; Region: PRK15481 281090002263 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 281090002264 DNA-binding site [nucleotide binding]; DNA binding site 281090002265 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 281090002266 pyridoxal 5'-phosphate binding site [chemical binding]; other site 281090002267 homodimer interface [polypeptide binding]; other site 281090002268 catalytic residue [active] 281090002269 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 281090002270 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 281090002271 active site 281090002272 multimer interface [polypeptide binding]; other site 281090002273 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 281090002274 predicted active site [active] 281090002275 catalytic triad [active] 281090002276 Transcriptional regulator; Region: Transcrip_reg; cl00361 281090002277 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cd00529 281090002278 active site 281090002279 putative DNA-binding cleft [nucleotide binding]; other site 281090002280 dimer interface [polypeptide binding]; other site 281090002281 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 281090002282 RuvA N terminal domain; Region: RuvA_N; pfam01330 281090002283 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 281090002284 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 281090002285 Walker A motif; other site 281090002286 ATP binding site [chemical binding]; other site 281090002287 Walker B motif; other site 281090002288 arginine finger; other site 281090002289 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 281090002290 Preprotein translocase subunit; Region: YajC; cl00806 281090002291 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 281090002292 Protein export membrane protein; Region: SecD_SecF; cl14618 281090002293 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 281090002294 Protein export membrane protein; Region: SecD_SecF; cl14618 281090002295 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 281090002296 active site residue [active] 281090002297 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 281090002298 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 281090002299 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 281090002300 synthetase active site [active] 281090002301 NTP binding site [chemical binding]; other site 281090002302 metal binding site [ion binding]; metal-binding site 281090002303 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 281090002304 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 281090002305 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 281090002306 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 281090002307 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; cd00317 281090002308 active site 281090002309 recombination factor protein RarA; Reviewed; Region: PRK13342 281090002310 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 281090002311 Walker A motif; other site 281090002312 ATP binding site [chemical binding]; other site 281090002313 Walker B motif; other site 281090002314 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 281090002315 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 281090002316 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 281090002317 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 281090002318 RNA binding surface [nucleotide binding]; other site 281090002319 Bacterial protein of unknown function (DUF948); Region: DUF948; cl01972 281090002320 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 281090002321 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: AlaRS_core; cd00673 281090002322 motif 1; other site 281090002323 active site 281090002324 motif 2; other site 281090002325 motif 3; other site 281090002326 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 281090002327 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 281090002328 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 281090002329 dimerization interface [polypeptide binding]; other site 281090002330 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 281090002331 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 281090002332 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 281090002333 shikimate binding site; other site 281090002334 NAD(P) binding site [chemical binding]; other site 281090002335 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 281090002336 Tetramer interface [polypeptide binding]; other site 281090002337 active site 281090002338 FMN-binding site [chemical binding]; other site 281090002339 shikimate kinase; Reviewed; Region: aroK; PRK00131 281090002340 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 281090002341 ADP binding site [chemical binding]; other site 281090002342 magnesium binding site [ion binding]; other site 281090002343 putative shikimate binding site; other site 281090002344 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 281090002345 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 281090002346 active site 281090002347 dimer interface [polypeptide binding]; other site 281090002348 metal binding site [ion binding]; metal-binding site 281090002349 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 281090002350 trimer interface [polypeptide binding]; other site 281090002351 active site 281090002352 dimer interface [polypeptide binding]; other site 281090002353 elongation factor P; Validated; Region: PRK00529 281090002354 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 281090002355 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 281090002356 RNA binding site [nucleotide binding]; other site 281090002357 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 281090002358 RNA binding site [nucleotide binding]; other site 281090002359 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 281090002360 putative RNA binding site [nucleotide binding]; other site 281090002361 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 281090002362 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 281090002363 catalytic residues [active] 281090002364 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 281090002365 active site 281090002366 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 281090002367 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 281090002368 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090002369 dihydroorotase; Validated; Region: pyrC; PRK09357 281090002370 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 281090002371 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 281090002372 active site 281090002373 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 281090002374 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 281090002375 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 281090002376 catalytic site [active] 281090002377 subunit interface [polypeptide binding]; other site 281090002378 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 281090002379 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 281090002380 ATP-grasp domain; Region: ATP-grasp_4; cl03087 281090002381 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 281090002382 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 281090002383 ATP-grasp domain; Region: ATP-grasp_4; cl03087 281090002384 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 281090002385 IMP binding site; other site 281090002386 dimer interface [polypeptide binding]; other site 281090002387 interdomain contacts; other site 281090002388 partial ornithine binding site; other site 281090002389 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 281090002390 active site 281090002391 dimer interface [polypeptide binding]; other site 281090002392 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 281090002393 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 281090002394 catalytic site [active] 281090002395 G-X2-G-X-G-K; other site 281090002396 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 281090002397 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 281090002398 Flavoprotein; Region: Flavoprotein; cl08021 281090002399 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 281090002400 S-adenosylmethionine synthetase; Validated; Region: PRK05250 281090002401 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 281090002402 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 281090002403 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 281090002404 primosome assembly protein PriA; Provisional; Region: PRK14873 281090002405 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 281090002406 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 281090002407 putative active site [active] 281090002408 substrate binding site [chemical binding]; other site 281090002409 putative cosubstrate binding site; other site 281090002410 catalytic site [active] 281090002411 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 281090002412 substrate binding site [chemical binding]; other site 281090002413 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 281090002414 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 281090002415 substrate binding site [chemical binding]; other site 281090002416 hexamer interface [polypeptide binding]; other site 281090002417 metal binding site [ion binding]; metal-binding site 281090002418 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 281090002419 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 281090002420 ATP phosphoribosyltransferase; Region: HisG; cl15266 281090002421 HisG, C-terminal domain; Region: HisG_C; cl06867 281090002422 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 281090002423 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 281090002424 substrate binding site [chemical binding]; other site 281090002425 glutamase interaction surface [polypeptide binding]; other site 281090002426 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 281090002427 anthranilate synthase component I; Provisional; Region: PRK13571 281090002428 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 281090002429 chorismate binding enzyme; Region: Chorismate_bind; cl10555 281090002430 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 281090002431 active site 281090002432 ribulose/triose binding site [chemical binding]; other site 281090002433 phosphate binding site [ion binding]; other site 281090002434 substrate (anthranilate) binding pocket [chemical binding]; other site 281090002435 product (indole) binding pocket [chemical binding]; other site 281090002436 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 281090002437 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 281090002438 pyridoxal 5'-phosphate binding site [chemical binding]; other site 281090002439 catalytic residue [active] 281090002440 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 281090002441 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 281090002442 substrate binding site [chemical binding]; other site 281090002443 active site 281090002444 catalytic residues [active] 281090002445 heterodimer interface [polypeptide binding]; other site 281090002446 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 281090002447 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 281090002448 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 281090002449 active site 281090002450 dimer interface [polypeptide binding]; other site 281090002451 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 281090002452 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 281090002453 active site 281090002454 FMN binding site [chemical binding]; other site 281090002455 substrate binding site [chemical binding]; other site 281090002456 3Fe-4S cluster binding site [ion binding]; other site 281090002457 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 281090002458 domain interface; other site 281090002459 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 281090002460 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090002461 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 281090002462 pyruvate kinase; Provisional; Region: PRK06247 281090002463 domain interfaces; other site 281090002464 active site 281090002465 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 281090002466 EamA-like transporter family; Region: EamA; cl01037 281090002467 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 281090002468 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 281090002469 active site 281090002470 phosphorylation site [posttranslational modification] 281090002471 intermolecular recognition site; other site 281090002472 dimerization interface [polypeptide binding]; other site 281090002473 ANTAR domain; Region: ANTAR; cl04297 281090002474 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 281090002475 CoenzymeA binding site [chemical binding]; other site 281090002476 subunit interaction site [polypeptide binding]; other site 281090002477 PHB binding site; other site 281090002478 DNA polymerase I; Provisional; Region: PRK05755 281090002479 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 281090002480 active site 281090002481 metal binding site 1 [ion binding]; metal-binding site 281090002482 putative 5' ssDNA interaction site; other site 281090002483 metal binding site 3; metal-binding site 281090002484 metal binding site 2 [ion binding]; metal-binding site 281090002485 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 281090002486 putative DNA binding site [nucleotide binding]; other site 281090002487 putative metal binding site [ion binding]; other site 281090002488 inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases; Region: DNA_polA_I_Bacillus_like_exo; cd06140 281090002489 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 281090002490 active site 281090002491 DNA binding site [nucleotide binding] 281090002492 catalytic site [active] 281090002493 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 281090002494 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK07899 281090002495 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 281090002496 RNA binding site [nucleotide binding]; other site 281090002497 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 281090002498 RNA binding site [nucleotide binding]; other site 281090002499 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 281090002500 RNA binding site [nucleotide binding]; other site 281090002501 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 281090002502 RNA binding site [nucleotide binding]; other site 281090002503 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 281090002504 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 281090002505 CoA-binding site [chemical binding]; other site 281090002506 ATP-binding [chemical binding]; other site 281090002507 excinuclease ABC subunit B; Provisional; Region: PRK05298 281090002508 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 281090002509 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 281090002510 nucleotide binding region [chemical binding]; other site 281090002511 ATP-binding site [chemical binding]; other site 281090002512 Ultra-violet resistance protein B; Region: UvrB; pfam12344 281090002513 UvrB/uvrC motif; Region: UVR; pfam02151 281090002514 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 281090002515 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 281090002516 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 281090002517 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 281090002518 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 281090002519 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 281090002520 GIY-YIG motif/motif A; other site 281090002521 active site 281090002522 catalytic site [active] 281090002523 putative DNA binding site [nucleotide binding]; other site 281090002524 metal binding site [ion binding]; metal-binding site 281090002525 UvrB/uvrC motif; Region: UVR; pfam02151 281090002526 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 281090002527 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 281090002528 Predicted P-loop-containing kinase [General function prediction only]; Region: COG1660 281090002529 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 281090002530 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 281090002531 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 281090002532 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 281090002533 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 281090002534 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 281090002535 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090002536 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 281090002537 Phosphoglycerate kinase; Region: PGK; pfam00162 281090002538 Phosphoglycerate kinase (PGK) is a monomeric enzyme which catalyzes the transfer of the high-energy phosphate group of 1,3-bisphosphoglycerate to ADP, forming ATP and 3-phosphoglycerate. This reaction represents the first of the two substrate-level...; Region: Phosphoglycerate_kinase; cd00318 281090002539 substrate binding site [chemical binding]; other site 281090002540 hinge regions; other site 281090002541 ADP binding site [chemical binding]; other site 281090002542 catalytic site [active] 281090002543 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 281090002544 substrate binding site [chemical binding]; other site 281090002545 dimer interface [polypeptide binding]; other site 281090002546 catalytic triad [active] 281090002547 Preprotein translocase SecG subunit; Region: SecG; cl09123 281090002548 Domain of unknown function (DUF4109); Region: DUF4109; pfam13397 281090002549 6PGL: 6-Phosphogluconolactonase (6PGL) subfamily; 6PGL catalyzes the second step of the oxidative phase of the pentose phosphate pathway, the hydrolyzation of 6-phosphoglucono-1,5-lactone (delta form) to 6-phosphogluconate. 6PGL is thought to guard...; Region: 6PGL; cd01400 281090002550 putative active site [active] 281090002551 opcA protein; Region: OpcA; TIGR00534 281090002552 Glucose-6-phosphate dehydrogenase subunit; Region: OpcA_G6PD_assem; cl01359 281090002553 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 281090002554 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 281090002555 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 281090002556 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 281090002557 active site 281090002558 dimer interface [polypeptide binding]; other site 281090002559 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 281090002560 Transaldolase-like proteins from plants and bacteria; Region: Transaldolase_like; cd00955 281090002561 putative active site [active] 281090002562 transaldolase; Provisional; Region: PRK03903 281090002563 catalytic residue [active] 281090002564 transketolase; Reviewed; Region: PRK05899 281090002565 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 281090002566 TPP-binding site [chemical binding]; other site 281090002567 dimer interface [polypeptide binding]; other site 281090002568 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 281090002569 PYR/PP interface [polypeptide binding]; other site 281090002570 dimer interface [polypeptide binding]; other site 281090002571 TPP binding site [chemical binding]; other site 281090002572 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 281090002573 UbiA prenyltransferase family; Region: UbiA; cl00337 281090002574 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl15852 281090002575 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 281090002576 FeS assembly protein SufB; Region: sufB; TIGR01980 281090002577 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 281090002578 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 a...; Region: Rieske_RO_ferredoxin; cd03528 281090002579 [2Fe-2S] cluster binding site [ion binding]; other site 281090002580 FeS assembly ATPase SufC; Region: sufC; TIGR01978 281090002581 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 281090002582 Walker A/P-loop; other site 281090002583 ATP binding site [chemical binding]; other site 281090002584 Q-loop/lid; other site 281090002585 ABC transporter signature motif; other site 281090002586 Walker B; other site 281090002587 D-loop; other site 281090002588 H-loop/switch region; other site 281090002589 Domain of unknown function DUF59; Region: DUF59; cl00941 281090002590 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 281090002591 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 281090002592 Walker A/P-loop; other site 281090002593 ATP binding site [chemical binding]; other site 281090002594 Q-loop/lid; other site 281090002595 ABC transporter signature motif; other site 281090002596 Walker B; other site 281090002597 D-loop; other site 281090002598 H-loop/switch region; other site 281090002599 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 281090002600 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 281090002601 Protein of unknown function (DUF3099); Region: DUF3099; pfam11298 281090002602 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090002603 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 281090002604 NAD(P) binding site [chemical binding]; other site 281090002605 active site 281090002606 phosphoserine phosphatase SerB; Region: serB; TIGR00338 281090002607 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 281090002608 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00844 281090002609 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 281090002610 ligand binding site; other site 281090002611 oligomer interface; other site 281090002612 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and...; Region: LbH_G1P_AT_C; cd04651 281090002613 dimer interface [polypeptide binding]; other site 281090002614 N-terminal domain interface [polypeptide binding]; other site 281090002615 sulfate 1 binding site; other site 281090002616 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 281090002617 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 281090002618 Walker A/P-loop; other site 281090002619 ATP binding site [chemical binding]; other site 281090002620 Q-loop/lid; other site 281090002621 ABC transporter signature motif; other site 281090002622 Walker B; other site 281090002623 D-loop; other site 281090002624 H-loop/switch region; other site 281090002625 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 281090002626 Domain of unknown function (DUF4190); Region: DUF4190; pfam13828 281090002627 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 281090002628 active site 281090002629 catalytic site [active] 281090002630 substrate binding site [chemical binding]; other site 281090002631 trehalose synthase; Region: treS_nterm; TIGR02456 281090002632 Alpha amylase catalytic domain found in Trehalose synthetase; Region: AmyAc_TreS; cd11334 281090002633 active site 281090002634 catalytic site [active] 281090002635 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 281090002636 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 281090002637 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 281090002638 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 281090002639 Glycosyltransferase Family 4; Region: Glyco_transf_4; pfam13439 281090002640 bifunctional RNase H/acid phosphatase; Provisional; Region: PRK07238 281090002641 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 281090002642 catalytic core [active] 281090002643 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 281090002644 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090002645 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 281090002646 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 281090002647 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 281090002648 Walker A/P-loop; other site 281090002649 ATP binding site [chemical binding]; other site 281090002650 Q-loop/lid; other site 281090002651 ABC transporter signature motif; other site 281090002652 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 281090002653 ABC transporter signature motif; other site 281090002654 Walker B; other site 281090002655 D-loop; other site 281090002656 H-loop/switch region; other site 281090002657 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 281090002658 Walker A/P-loop; other site 281090002659 ATP binding site [chemical binding]; other site 281090002660 Q-loop/lid; other site 281090002661 ABC transporter signature motif; other site 281090002662 Walker B; other site 281090002663 D-loop; other site 281090002664 H-loop/switch region; other site 281090002665 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 281090002666 active site 281090002667 catalytic triad [active] 281090002668 oxyanion hole [active] 281090002669 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 281090002670 ATP binding site [chemical binding]; other site 281090002671 putative Mg++ binding site [ion binding]; other site 281090002672 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 281090002673 ATP-binding site [chemical binding]; other site 281090002674 glutamate dehydrogenase; Provisional; Region: PRK09414 281090002675 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 281090002676 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090002677 NAD(P) binding pocket [chemical binding]; other site 281090002678 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 281090002679 hypothetical protein; Provisional; Region: PRK06541 281090002680 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 281090002681 inhibitor-cofactor binding pocket; inhibition site 281090002682 pyridoxal 5'-phosphate binding site [chemical binding]; other site 281090002683 catalytic residue [active] 281090002684 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 281090002685 Helix-turn-helix domains; Region: HTH; cl00088 281090002686 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 281090002687 NAD(P) binding site [chemical binding]; other site 281090002688 catalytic residues [active] 281090002689 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 281090002690 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 281090002691 tetrameric interface [polypeptide binding]; other site 281090002692 NAD binding site [chemical binding]; other site 281090002693 catalytic residues [active] 281090002694 substrate binding site [chemical binding]; other site 281090002695 transcription termination factor Rho; Provisional; Region: PRK12678 281090002696 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; cl00062 281090002697 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 281090002698 Protein phosphatase 2C; Region: PP2C; pfam00481 281090002699 active site 281090002700 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 281090002701 Catalytic domain of Protein Kinases; Region: PKc; cd00180 281090002702 active site 281090002703 ATP binding site [chemical binding]; other site 281090002704 substrate binding site [chemical binding]; other site 281090002705 activation loop (A-loop); other site 281090002706 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 281090002707 Interdomain contacts; other site 281090002708 Cytokine receptor motif; other site 281090002709 MoxR-like ATPases [General function prediction only]; Region: COG0714 281090002710 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 281090002711 Walker A motif; other site 281090002712 ATP binding site [chemical binding]; other site 281090002713 Walker B motif; other site 281090002714 arginine finger; other site 281090002715 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 281090002716 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 281090002717 Transglutaminase-like superfamily; Region: Transglut_core; cl10469 281090002718 zinc-ribbon domain; Region: zf-ribbon_3; cl11198 281090002719 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 281090002720 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 281090002721 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 281090002722 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090002723 L-asparaginase II; Region: Asparaginase_II; cl01842 281090002724 4-aminobutyrate aminotransferase; Provisional; Region: PRK06058 281090002725 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 281090002726 inhibitor-cofactor binding pocket; inhibition site 281090002727 pyridoxal 5'-phosphate binding site [chemical binding]; other site 281090002728 catalytic residue [active] 281090002729 OsmC-like protein; Region: OsmC; cl00767 281090002730 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 281090002731 putative acyl-acceptor binding pocket; other site 281090002732 4-aminobutyrate aminotransferase; Provisional; Region: PRK06058 281090002733 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 281090002734 inhibitor-cofactor binding pocket; inhibition site 281090002735 pyridoxal 5'-phosphate binding site [chemical binding]; other site 281090002736 catalytic residue [active] 281090002737 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 281090002738 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 281090002739 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 281090002740 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 281090002741 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 281090002742 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 281090002743 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 281090002744 active site 281090002745 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 281090002746 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 281090002747 putative substrate binding region [chemical binding]; other site 281090002748 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 281090002749 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 281090002750 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 281090002751 prolyl-tRNA synthetase; Provisional; Region: PRK09194 281090002752 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: ProRS_core_prok; cd00779 281090002753 dimer interface [polypeptide binding]; other site 281090002754 motif 1; other site 281090002755 active site 281090002756 motif 2; other site 281090002757 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 281090002758 putative deacylase active site [active] 281090002759 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 281090002760 active site 281090002761 motif 3; other site 281090002762 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 281090002763 anticodon binding site; other site 281090002764 Predicted membrane protein [Function unknown]; Region: COG4129 281090002765 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 281090002766 Uncharacterized conserved protein [Function unknown]; Region: COG4850 281090002767 Uncharacterized conserved protein (DUF2183); Region: DUF2183; pfam09949 281090002768 Helix-turn-helix domains; Region: HTH; cl00088 281090002769 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 281090002770 sulfate ABC transporter, ATP-binding protein; Region: 3a0106s01; TIGR00968 281090002771 Walker A/P-loop; other site 281090002772 ATP binding site [chemical binding]; other site 281090002773 Q-loop/lid; other site 281090002774 ABC transporter signature motif; other site 281090002775 Walker B; other site 281090002776 D-loop; other site 281090002777 H-loop/switch region; other site 281090002778 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 281090002779 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 281090002780 dimer interface [polypeptide binding]; other site 281090002781 conserved gate region; other site 281090002782 putative PBP binding loops; other site 281090002783 ABC-ATPase subunit interface; other site 281090002784 NMT1-like family; Region: NMT1_2; cl15260 281090002785 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 281090002786 Peptidase family M48; Region: Peptidase_M48; cl12018 281090002787 Helix-turn-helix domains; Region: HTH; cl00088 281090002788 metal binding site 2 [ion binding]; metal-binding site 281090002789 putative DNA binding helix; other site 281090002790 metal binding site 1 [ion binding]; metal-binding site 281090002791 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 281090002792 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 281090002793 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 281090002794 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 281090002795 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 281090002796 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 281090002797 Walker A/P-loop; other site 281090002798 ATP binding site [chemical binding]; other site 281090002799 Q-loop/lid; other site 281090002800 ABC transporter signature motif; other site 281090002801 Walker B; other site 281090002802 D-loop; other site 281090002803 H-loop/switch region; other site 281090002804 thiol reductant ABC exporter, CydC subunit; Region: CydC; TIGR02868 281090002805 The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export. They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a...; Region: ABCC_MRP_Like; cd03228 281090002806 Walker A/P-loop; other site 281090002807 ATP binding site [chemical binding]; other site 281090002808 Q-loop/lid; other site 281090002809 ABC transporter signature motif; other site 281090002810 Walker B; other site 281090002811 D-loop; other site 281090002812 H-loop/switch region; other site 281090002813 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 281090002814 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 281090002815 chorismate binding enzyme; Region: Chorismate_bind; cl10555 281090002816 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 281090002817 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 281090002818 HIGH motif; other site 281090002819 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 281090002820 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 281090002821 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 281090002822 active site 281090002823 KMSKS motif; other site 281090002824 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 281090002825 tRNA binding surface [nucleotide binding]; other site 281090002826 Prephenate dehydratase; Region: PDT; pfam00800 281090002827 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 281090002828 rRNA interaction site [nucleotide binding]; other site 281090002829 S8 interaction site; other site 281090002830 putative laminin-1 binding site; other site 281090002831 elongation factor Ts; Provisional; Region: tsf; PRK09377 281090002832 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 281090002833 Elongation factor TS; Region: EF_TS; pfam00889 281090002834 Elongation factor TS; Region: EF_TS; pfam00889 281090002835 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 281090002836 putative nucleotide binding site [chemical binding]; other site 281090002837 uridine monophosphate binding site [chemical binding]; other site 281090002838 homohexameric interface [polypeptide binding]; other site 281090002839 ribosome recycling factor; Reviewed; Region: frr; PRK00083 281090002840 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 281090002841 hinge region; other site 281090002842 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 281090002843 DivIVA domain repeat protein; Region: divI1A_rptt_fam; TIGR03543 281090002844 DivIVA domain; Region: DivI1A_domain; TIGR03544 281090002845 DivIVA domain; Region: DivI1A_domain; TIGR03544 281090002846 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 281090002847 N-acetyl-D-glucosamine binding site [chemical binding]; other site 281090002848 catalytic residue [active] 281090002849 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 281090002850 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 281090002851 DivIVA protein; Region: DivIVA; pfam05103 281090002852 Apolipoprotein A1/A4/E domain; Region: Apolipoprotein; pfam01442 281090002853 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 281090002854 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 281090002855 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cd00189 281090002856 TPR motif; other site 281090002857 binding surface 281090002858 glycogen branching enzyme; Provisional; Region: PRK05402 281090002859 N-terminal Early set domain associated with the catalytic domain of prokaryotic glycogen branching enzyme; Region: E_set_GBE_prok_N; cd02855 281090002860 Alpha amylase catalytic domain found in the Glycogen branching enzyme (also called 1,4-alpha-glucan branching enzyme); Region: AmyAc_Glg_BE; cd11322 281090002861 active site 281090002862 catalytic site [active] 281090002863 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 281090002864 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 281090002865 Alpha amylase catalytic domain found in GlgE-like proteins; Region: AmyAc_GlgE_like; cd11344 281090002866 active site 281090002867 homodimer interface [polypeptide binding]; other site 281090002868 catalytic site [active] 281090002869 acceptor binding site [chemical binding]; other site 281090002870 Domain of unknown function (DUF3846); Region: DUF3846; pfam12957 281090002871 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 281090002872 dimer interface [polypeptide binding]; other site 281090002873 Peroxiredoxin (PRX) family, AhpE-like subfamily; composed of proteins similar to Mycobacterium tuberculosis AhpE. AhpE is described as a 1-cys PRX because of the absence of a resolving cysteine. The structure and sequence of AhpE, however, show greater...; Region: PRX_AhpE_like; cd03018 281090002874 dimer interface [polypeptide binding]; other site 281090002875 catalytic triad [active] 281090002876 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 281090002877 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 281090002878 dimer interface [polypeptide binding]; other site 281090002879 TPP-binding site [chemical binding]; other site 281090002880 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 281090002881 Helix-turn-helix domains; Region: HTH; cl00088 281090002882 Acyl transferase domain; Region: Acyl_transf_1; cl08282 281090002883 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 281090002884 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 281090002885 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 281090002886 dimer interface [polypeptide binding]; other site 281090002887 active site 281090002888 CoA binding pocket [chemical binding]; other site 281090002889 Phosphopantetheine attachment site; Region: PP-binding; cl09936 281090002890 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 281090002891 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 281090002892 dimer interface [polypeptide binding]; other site 281090002893 active site 281090002894 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 281090002895 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 281090002896 active site 281090002897 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 281090002898 catalytic triad [active] 281090002899 dimer interface [polypeptide binding]; other site 281090002900 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 281090002901 active site 1 [active] 281090002902 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 281090002903 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 281090002904 Walker A/P-loop; other site 281090002905 ATP binding site [chemical binding]; other site 281090002906 Q-loop/lid; other site 281090002907 ABC transporter signature motif; other site 281090002908 Walker B; other site 281090002909 D-loop; other site 281090002910 H-loop/switch region; other site 281090002911 ABC transporter; Region: ABC_tran_2; pfam12848 281090002912 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 281090002913 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 281090002914 ssDNA binding site [nucleotide binding]; other site 281090002915 dimer interface [polypeptide binding]; other site 281090002916 tetramer (dimer of dimers) interface [polypeptide binding]; other site 281090002917 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 281090002918 active site 281090002919 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 281090002920 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 281090002921 homodimer interface [polypeptide binding]; other site 281090002922 NAD binding pocket [chemical binding]; other site 281090002923 ATP binding pocket [chemical binding]; other site 281090002924 Mg binding site [ion binding]; other site 281090002925 active-site loop [active] 281090002926 Helix-turn-helix domains; Region: HTH; cl00088 281090002927 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 281090002928 dimerization interface [polypeptide binding]; other site 281090002929 Transmembrane secretion effector; Region: MFS_3; pfam05977 281090002930 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 281090002931 putative active site [active] 281090002932 catalytic site [active] 281090002933 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 281090002934 Helix-turn-helix domains; Region: HTH; cl00088 281090002935 Transposase; Region: DEDD_Tnp_IS110; pfam01548 281090002936 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 281090002937 Integrase core domain; Region: rve_3; cl15866 281090002938 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 281090002939 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 281090002940 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 281090002941 motif II; other site 281090002942 Transposase, Mutator family; Region: Transposase_mut; pfam00872 281090002943 Transposase, Mutator family; Region: Transposase_mut; pfam00872 281090002944 MULE transposase domain; Region: MULE; pfam10551 281090002945 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 281090002946 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 281090002947 DNA binding site [nucleotide binding] 281090002948 Int/Topo IB signature motif; other site 281090002949 active site 281090002950 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 281090002951 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 281090002952 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 281090002953 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 281090002954 HIGH motif; other site 281090002955 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 281090002956 active site 281090002957 KMSKS motif; other site 281090002958 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 281090002959 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 281090002960 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 281090002961 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090002962 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 281090002963 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 281090002964 homodimer interface [polypeptide binding]; other site 281090002965 substrate-cofactor binding pocket; other site 281090002966 catalytic residue [active] 281090002967 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 281090002968 tartrate dehydrogenase; Provisional; Region: PRK08194 281090002969 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 281090002970 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090002971 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 281090002972 putative L-serine binding site [chemical binding]; other site 281090002973 CutC family; Region: CutC; cl01218 281090002974 ketol-acid reductoisomerase; Provisional; Region: PRK05479 281090002975 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090002976 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 281090002977 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 281090002978 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 281090002979 putative valine binding site [chemical binding]; other site 281090002980 dimer interface [polypeptide binding]; other site 281090002981 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 281090002982 acetolactate synthase 1 catalytic subunit; Validated; Region: PRK07789 281090002983 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 281090002984 PYR/PP interface [polypeptide binding]; other site 281090002985 dimer interface [polypeptide binding]; other site 281090002986 TPP binding site [chemical binding]; other site 281090002987 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; cl00815 281090002988 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 281090002989 TPP-binding site [chemical binding]; other site 281090002990 dimer interface [polypeptide binding]; other site 281090002991 Dehydratase family; Region: ILVD_EDD; cl00340 281090002992 Trehalose-6-phosphatase [Carbohydrate transport and metabolism]; Region: OtsB; COG1877 281090002993 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 281090002994 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 281090002995 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 281090002996 active site 281090002997 homotetramer interface [polypeptide binding]; other site 281090002998 SEST_like. A family of secreted SGNH-hydrolases similar to Streptomyces scabies esterase (SEST), a causal agent of the potato scab disease, which hydrolyzes a specific ester bond in suberin, a plant lipid. The tertiary fold of this enzyme is...; Region: SEST_like; cd01823 281090002999 active site 281090003000 catalytic triad [active] 281090003001 oxyanion hole [active] 281090003002 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 281090003003 transmembrane helices; other site 281090003004 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 281090003005 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 281090003006 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 281090003007 Domain of unknown function (DUF2017); Region: DUF2017; pfam09438 281090003008 Helix-turn-helix domains; Region: HTH; cl00088 281090003009 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 281090003010 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 281090003011 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 281090003012 active site 281090003013 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 281090003014 dimerization interface [polypeptide binding]; other site 281090003015 putative DNA binding site [nucleotide binding]; other site 281090003016 putative Zn2+ binding site [ion binding]; other site 281090003017 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 281090003018 This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity. In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily...; Region: ABC_putative_ATPase; cd03269 281090003019 Walker A/P-loop; other site 281090003020 ATP binding site [chemical binding]; other site 281090003021 Q-loop/lid; other site 281090003022 ABC transporter signature motif; other site 281090003023 Walker B; other site 281090003024 D-loop; other site 281090003025 H-loop/switch region; other site 281090003026 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 281090003027 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 281090003028 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 281090003029 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 281090003030 active site 281090003031 purine riboside binding site [chemical binding]; other site 281090003032 amino acid transporter; Region: 2A0306; TIGR00909 281090003033 helicase 45; Provisional; Region: PTZ00424 281090003034 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 281090003035 ATP binding site [chemical binding]; other site 281090003036 Mg++ binding site [ion binding]; other site 281090003037 motif III; other site 281090003038 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 281090003039 nucleotide binding region [chemical binding]; other site 281090003040 ATP-binding site [chemical binding]; other site 281090003041 DbpA RNA binding domain; Region: DbpA; pfam03880 281090003042 Helix-turn-helix domains; Region: HTH; cl00088 281090003043 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 281090003044 Protein tyrosine/serine phosphatase [Signal transduction mechanisms]; Region: COG2365 281090003045 Tyrosine phosphatase family C-terminal region; Region: Y_phosphatase3C; pfam13348 281090003046 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 281090003047 SmpB-tmRNA interface; other site 281090003048 FtsX-like permease family; Region: FtsX; cl15850 281090003049 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 281090003050 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 281090003051 Walker A/P-loop; other site 281090003052 ATP binding site [chemical binding]; other site 281090003053 Q-loop/lid; other site 281090003054 ABC transporter signature motif; other site 281090003055 Walker B; other site 281090003056 D-loop; other site 281090003057 H-loop/switch region; other site 281090003058 peptide chain release factor 2; Validated; Region: prfB; PRK00578 281090003059 RF-1 domain; Region: RF-1; cl02875 281090003060 RF-1 domain; Region: RF-1; cl02875 281090003061 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 281090003062 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 281090003063 active site 281090003064 dimerization interface [polypeptide binding]; other site 281090003065 Ribonuclease PH; Region: RNase_PH_bact; cd11362 281090003066 hexamer interface [polypeptide binding]; other site 281090003067 active site 281090003068 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 281090003069 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 281090003070 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting, reaction...; Region: NAPRTase_A; cd01570 281090003071 active site 281090003072 Protein of unknown function (DUF3039); Region: DUF3039; pfam11238 281090003073 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 281090003074 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 281090003075 Walker A/P-loop; other site 281090003076 ATP binding site [chemical binding]; other site 281090003077 Q-loop/lid; other site 281090003078 ABC transporter signature motif; other site 281090003079 Walker B; other site 281090003080 D-loop; other site 281090003081 H-loop/switch region; other site 281090003082 ABC-2 type transporter; Region: ABC2_membrane; cl11417 281090003083 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and...; Region: ABC_KpsT_Wzt; cd03220 281090003084 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 281090003085 Walker A/P-loop; other site 281090003086 ATP binding site [chemical binding]; other site 281090003087 Q-loop/lid; other site 281090003088 ABC transporter signature motif; other site 281090003089 Walker B; other site 281090003090 D-loop; other site 281090003091 H-loop/switch region; other site 281090003092 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 281090003093 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 281090003094 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 281090003095 ExoA is involved in the biosynthesis of succinoglycan; Region: Succinoglycan_BP_ExoA; cd02525 281090003096 Ligand binding site; other site 281090003097 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 281090003098 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 281090003099 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 281090003100 active site 281090003101 Helix-turn-helix domains; Region: HTH; cl00088 281090003102 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 281090003103 Integrase core domain; Region: rve; cl01316 281090003104 Transposase; Region: DEDD_Tnp_IS110; pfam01548 281090003105 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 281090003106 Transposase, Mutator family; Region: Transposase_mut; pfam00872 281090003107 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 281090003108 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 281090003109 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 281090003110 DNA-binding interface [nucleotide binding]; DNA binding site 281090003111 Integrase core domain; Region: rve; cl01316 281090003112 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 281090003113 Walker A motif; other site 281090003114 ATP binding site [chemical binding]; other site 281090003115 Walker B motif; other site 281090003116 Integrase core domain; Region: rve; cl01316 281090003117 Integrase core domain; Region: rve_3; cl15866 281090003118 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 281090003119 CAAX protease self-immunity; Region: Abi; cl00558 281090003120 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 281090003121 N-acetyl-glucosamine transferase is involved in the synthesis of Poly-beta-1,6-N-acetyl-D-glucosamine; Region: GlcNAc-1-P_transferase; cd06436 281090003122 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 281090003123 DXD motif; other site 281090003124 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 281090003125 N-acetyl-glucosamine transferase is involved in the synthesis of Poly-beta-1,6-N-acetyl-D-glucosamine; Region: GlcNAc-1-P_transferase; cd06436 281090003126 DXD motif; other site 281090003127 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 281090003128 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 281090003129 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 281090003130 homodimer interface [polypeptide binding]; other site 281090003131 active site 281090003132 Helix-turn-helix domains; Region: HTH; cl00088 281090003133 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 281090003134 DNA binding residues [nucleotide binding] 281090003135 dimerization interface [polypeptide binding]; other site 281090003136 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 281090003137 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 281090003138 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 281090003139 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 281090003140 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 281090003141 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 281090003142 putative catalytic site [active] 281090003143 putative phosphate binding site [ion binding]; other site 281090003144 putative metal binding site [ion binding]; other site 281090003145 Transcriptional regulators [Transcription]; Region: PurR; COG1609 281090003146 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 281090003147 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 281090003148 dimerization interface [polypeptide binding]; other site 281090003149 ligand binding site [chemical binding]; other site 281090003150 Lsr2; Region: Lsr2; pfam11774 281090003151 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 281090003152 putative active site [active] 281090003153 putative substrate binding site [chemical binding]; other site 281090003154 catalytic site [active] 281090003155 dimer interface [polypeptide binding]; other site 281090003156 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 281090003157 active site 281090003158 catalytic triad [active] 281090003159 oxyanion hole [active] 281090003160 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 281090003161 catalytic residues [active] 281090003162 F-actin binding; Region: F_actin_bind; cl07494 281090003163 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 281090003164 N-acetyl-D-glucosamine binding site [chemical binding]; other site 281090003165 catalytic residue [active] 281090003166 Possibl zinc metallo-peptidase; Region: DUF1025; cl01577 281090003167 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 281090003168 Cobalt transport protein; Region: CbiQ; cl00463 281090003169 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 281090003170 Walker A/P-loop; other site 281090003171 ATP binding site [chemical binding]; other site 281090003172 Q-loop/lid; other site 281090003173 ABC transporter signature motif; other site 281090003174 Walker B; other site 281090003175 D-loop; other site 281090003176 H-loop/switch region; other site 281090003177 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 281090003178 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 281090003179 Walker A/P-loop; other site 281090003180 ATP binding site [chemical binding]; other site 281090003181 Q-loop/lid; other site 281090003182 ABC transporter signature motif; other site 281090003183 Walker B; other site 281090003184 D-loop; other site 281090003185 H-loop/switch region; other site 281090003186 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; cl01943 281090003187 Sporulation protein YtfJ (Spore_YtfJ); Region: Spore_YtfJ; cl01596 281090003188 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 281090003189 putative catalytic site [active] 281090003190 putative metal binding site [ion binding]; other site 281090003191 putative phosphate binding site [ion binding]; other site 281090003192 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 281090003193 active site 281090003194 DNA polymerase IV; Validated; Region: PRK02406 281090003195 DNA binding site [nucleotide binding] 281090003196 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cl00470 281090003197 Protein of unknown function (DUF1697); Region: DUF1697; cl01557 281090003198 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 281090003199 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 281090003200 GatB domain; Region: GatB_Yqey; cl11497 281090003201 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 281090003202 Amidase; Region: Amidase; cl11426 281090003203 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 281090003204 Alpha/beta hydrolase; Region: Abhydrolase_8; pfam06259 281090003205 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 281090003206 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 281090003207 nucleotide binding pocket [chemical binding]; other site 281090003208 K-X-D-G motif; other site 281090003209 catalytic site [active] 281090003210 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 281090003211 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 281090003212 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 281090003213 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 281090003214 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 281090003215 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 281090003216 catalytic residue [active] 281090003217 N-terminal Early set domain associated with the catalytic domain of Glycogen debranching enzyme and bacterial isoamylase (also called glycogen 6-glucanohydrolase); Region: E_set_GDE_Isoamylase_N; cd02856 281090003218 Alpha amylase catalytic domain family; Region: AmyAc_family; cl07893 281090003219 Helix-turn-helix domains; Region: HTH; cl00088 281090003220 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 281090003221 Integrase core domain; Region: rve; cl01316 281090003222 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 281090003223 AMP-binding enzyme; Region: AMP-binding; cl15778 281090003224 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 281090003225 putative dimer interface [polypeptide binding]; other site 281090003226 ligand binding site [chemical binding]; other site 281090003227 Zn binding site [ion binding]; other site 281090003228 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 281090003229 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 281090003230 catalytic residue [active] 281090003231 putative FPP diphosphate binding site; other site 281090003232 putative FPP binding hydrophobic cleft; other site 281090003233 dimer interface [polypeptide binding]; other site 281090003234 putative IPP diphosphate binding site; other site 281090003235 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 281090003236 Recombination protein O N terminal; Region: RecO_N; cl15812 281090003237 Recombination protein O C terminal; Region: RecO_C; pfam02565 281090003238 Predicted membrane protein [Function unknown]; Region: COG2860 281090003239 UPF0126 domain; Region: UPF0126; pfam03458 281090003240 2-isopropylmalate synthase; Validated; Region: PRK03739 281090003241 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 281090003242 active site 281090003243 catalytic residues [active] 281090003244 metal binding site [ion binding]; metal-binding site 281090003245 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; cl07212 281090003246 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 281090003247 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 281090003248 Putative esterase; Region: Esterase; pfam00756 281090003249 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 281090003250 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 281090003251 Walker A/P-loop; other site 281090003252 ATP binding site [chemical binding]; other site 281090003253 Q-loop/lid; other site 281090003254 ABC transporter signature motif; other site 281090003255 Walker B; other site 281090003256 D-loop; other site 281090003257 H-loop/switch region; other site 281090003258 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 281090003259 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 281090003260 active site 281090003261 phosphorylation site [posttranslational modification] 281090003262 intermolecular recognition site; other site 281090003263 dimerization interface [polypeptide binding]; other site 281090003264 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 281090003265 DNA binding residues [nucleotide binding] 281090003266 dimerization interface [polypeptide binding]; other site 281090003267 Histidine kinase; Region: HisKA_3; pfam07730 281090003268 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 281090003269 GTPase Era; Reviewed; Region: era; PRK00089 281090003270 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 281090003271 G1 box; other site 281090003272 GTP/Mg2+ binding site [chemical binding]; other site 281090003273 Switch I region; other site 281090003274 G2 box; other site 281090003275 Switch II region; other site 281090003276 G3 box; other site 281090003277 G4 box; other site 281090003278 G5 box; other site 281090003279 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 281090003280 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 281090003281 Domain of unknown function DUF21; Region: DUF21; pfam01595 281090003282 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 281090003283 Transporter associated domain; Region: CorC_HlyC; cl08393 281090003284 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 281090003285 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 281090003286 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 281090003287 nucleotide binding site/active site [active] 281090003288 HIT family signature motif; other site 281090003289 catalytic residue [active] 281090003290 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 281090003291 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 281090003292 chaperone protein DnaJ; Provisional; Region: PRK14278 281090003293 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 281090003294 HSP70 interaction site [polypeptide binding]; other site 281090003295 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 281090003296 Zn binding sites [ion binding]; other site 281090003297 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 281090003298 dimer interface [polypeptide binding]; other site 281090003299 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 281090003300 HrcA protein C terminal domain; Region: HrcA; pfam01628 281090003301 Tic20-like protein; Region: Tic20; pfam09685 281090003302 coproporphyrinogen III oxidase; Validated; Region: PRK05628 281090003303 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 281090003304 FeS/SAM binding site; other site 281090003305 Domain of unknown function (DUF1990); Region: DUF1990; cl01969 281090003306 GTP-binding protein LepA; Provisional; Region: PRK05433 281090003307 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 281090003308 G1 box; other site 281090003309 putative GEF interaction site [polypeptide binding]; other site 281090003310 GTP/Mg2+ binding site [chemical binding]; other site 281090003311 Switch I region; other site 281090003312 G2 box; other site 281090003313 G3 box; other site 281090003314 Switch II region; other site 281090003315 G4 box; other site 281090003316 G5 box; other site 281090003317 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 281090003318 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 281090003319 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 281090003320 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090003321 NAD(P) binding site [chemical binding]; other site 281090003322 active site 281090003323 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 281090003324 hypothetical protein; Reviewed; Region: PRK07914 281090003325 D-xylose transporter XylE; Provisional; Region: xylE; PRK10077 281090003326 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 281090003327 putative substrate translocation pore; other site 281090003328 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 281090003329 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 281090003330 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 281090003331 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 281090003332 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 281090003333 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 281090003334 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 281090003335 Restriction endonuclease; Region: Mrr_cat; cl00516 281090003336 Protein of unknown function (DUF2469); Region: DUF2469; pfam10611 281090003337 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 281090003338 RNA/DNA hybrid binding site [nucleotide binding]; other site 281090003339 active site 281090003340 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 281090003341 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 281090003342 active site 281090003343 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 281090003344 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 281090003345 putative substrate translocation pore; other site 281090003346 FCD domain; Region: FCD; cl11656 281090003347 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 281090003348 RimM N-terminal domain; Region: RimM; pfam01782 281090003349 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 281090003350 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 281090003351 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 281090003352 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 281090003353 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cd00229 281090003354 active site 281090003355 catalytic triad [active] 281090003356 oxyanion hole [active] 281090003357 Helix-turn-helix domains; Region: HTH; cl00088 281090003358 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 281090003359 Integrase core domain; Region: rve; cl01316 281090003360 signal recognition particle protein; Provisional; Region: PRK10867 281090003361 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 281090003362 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 281090003363 P loop; other site 281090003364 GTP binding site [chemical binding]; other site 281090003365 Signal peptide binding domain; Region: SRP_SPB; pfam02978 281090003366 Protein of unknown function (DUF2004); Region: DUF2004; pfam09406 281090003367 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 281090003368 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 281090003369 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 281090003370 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 281090003371 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 281090003372 Walker A/P-loop; other site 281090003373 ATP binding site [chemical binding]; other site 281090003374 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 281090003375 Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function. Barmotin belongs to the SMC protein family. SMC proteins are large; Region: ABC_SMC_barmotin; cd03278 281090003376 ABC transporter signature motif; other site 281090003377 Walker B; other site 281090003378 D-loop; other site 281090003379 H-loop/switch region; other site 281090003380 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 281090003381 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants, cyanobacteria; Region: Thr-synth_2; cd01560 281090003382 pyridoxal 5'-phosphate binding site [chemical binding]; other site 281090003383 catalytic residue [active] 281090003384 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 281090003385 ABC transporter signature motif; other site 281090003386 Walker B; other site 281090003387 D-loop; other site 281090003388 H-loop/switch region; other site 281090003389 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 281090003390 Walker A/P-loop; other site 281090003391 ATP binding site [chemical binding]; other site 281090003392 Q-loop/lid; other site 281090003393 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 281090003394 TM-ABC transporter signature motif; other site 281090003395 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 281090003396 The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine. MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E; Region: ABC_Mj1267_LivG_branched; cd03219 281090003397 Walker A/P-loop; other site 281090003398 ATP binding site [chemical binding]; other site 281090003399 Q-loop/lid; other site 281090003400 ABC transporter signature motif; other site 281090003401 Walker B; other site 281090003402 D-loop; other site 281090003403 H-loop/switch region; other site 281090003404 Cytochrome c oxidase subunit IV; Region: Cyt_c_ox_IV; pfam12270 281090003405 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 281090003406 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 281090003407 D-pathway; other site 281090003408 Putative ubiquinol binding site [chemical binding]; other site 281090003409 Low-spin heme (heme b) binding site [chemical binding]; other site 281090003410 Putative water exit pathway; other site 281090003411 Binuclear center (heme o3/CuB) [ion binding]; other site 281090003412 K-pathway; other site 281090003413 Putative proton exit pathway; other site 281090003414 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 281090003415 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 281090003416 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 281090003417 M20 Dipeptidases; Region: M20_Dipept_like; cd03893 281090003418 active site 281090003419 metal binding site [ion binding]; metal-binding site 281090003420 dimer interface [polypeptide binding]; other site 281090003421 Protein of unknown function (DUF3043); Region: DUF3043; pfam11241 281090003422 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 281090003423 RNA/DNA hybrid binding site [nucleotide binding]; other site 281090003424 active site 281090003425 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4994 281090003426 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 281090003427 quinone interaction residues [chemical binding]; other site 281090003428 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 281090003429 active site 281090003430 catalytic residues [active] 281090003431 FMN binding site [chemical binding]; other site 281090003432 substrate binding site [chemical binding]; other site 281090003433 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 281090003434 ATP cone domain; Region: ATP-cone; pfam03477 281090003435 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 281090003436 histidinol dehydrogenase; Region: hisD; TIGR00069 281090003437 NAD binding site [chemical binding]; other site 281090003438 dimerization interface [polypeptide binding]; other site 281090003439 product binding site; other site 281090003440 substrate binding site [chemical binding]; other site 281090003441 zinc binding site [ion binding]; other site 281090003442 catalytic residues [active] 281090003443 Flavin Reductases; Region: FlaRed; cl00801 281090003444 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 281090003445 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 281090003446 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 281090003447 generic binding surface II; other site 281090003448 generic binding surface I; other site 281090003449 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 281090003450 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF and...; Region: PseudoU_synth_RluCD_like; cd02869 281090003451 active site 281090003452 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 281090003453 Protein of unknown function (DUF552); Region: DUF552; cl00775 281090003454 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 281090003455 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 281090003456 catalytic residue [active] 281090003457 cell division protein FtsZ; Validated; Region: PRK09330 281090003458 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 281090003459 nucleotide binding site [chemical binding]; other site 281090003460 SulA interaction site; other site 281090003461 cell division protein FtsQ; Provisional; Region: PRK05529 281090003462 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 281090003463 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 281090003464 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 281090003465 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 281090003466 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 281090003467 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 281090003468 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 281090003469 homodimer interface [polypeptide binding]; other site 281090003470 active site 281090003471 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 281090003472 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK01438 281090003473 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 281090003474 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 281090003475 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 281090003476 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 281090003477 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 281090003478 Mg++ binding site [ion binding]; other site 281090003479 putative catalytic motif [active] 281090003480 putative substrate binding site [chemical binding]; other site 281090003481 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 281090003482 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 281090003483 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 281090003484 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 281090003485 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 281090003486 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 281090003487 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 281090003488 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 281090003489 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 281090003490 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 281090003491 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 281090003492 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090003493 cell division protein MraZ; Reviewed; Region: PRK00326 281090003494 MraZ protein; Region: MraZ; pfam02381 281090003495 MraZ protein; Region: MraZ; pfam02381 281090003496 Protein of unknown function (DUF3040); Region: DUF3040; pfam11239 281090003497 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 281090003498 substrate binding pocket [chemical binding]; other site 281090003499 chain length determination region; other site 281090003500 substrate-Mg2+ binding site; other site 281090003501 catalytic residues [active] 281090003502 aspartate-rich region 1; other site 281090003503 active site lid residues [active] 281090003504 geranyl diphosphate synthase; Region: PLN02890 281090003505 aspartate-rich region 2; other site 281090003506 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 281090003507 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 281090003508 putative peptidoglycan binding site; other site 281090003509 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 281090003510 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 281090003511 Catalytic domain of Protein Kinases; Region: PKc; cd00180 281090003512 active site 281090003513 ATP binding site [chemical binding]; other site 281090003514 substrate binding site [chemical binding]; other site 281090003515 activation loop (A-loop); other site 281090003516 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 281090003517 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 281090003518 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 281090003519 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 281090003520 Class-II DAHP synthetase family; Region: DAHP_synth_2; cl03230 281090003521 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 281090003522 putative acyl-acceptor binding pocket; other site 281090003523 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 281090003524 N-acetylmannosamine kinase; Provisional; Region: PRK05082 281090003525 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 281090003526 AMP-binding enzyme; Region: AMP-binding; cl15778 281090003527 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 281090003528 active site 281090003529 catalytic residues [active] 281090003530 metal binding site [ion binding]; metal-binding site 281090003531 Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]; Region: flhG; COG0455 281090003532 pyruvate carboxylase; Reviewed; Region: PRK12999 281090003533 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 281090003534 ATP-grasp domain; Region: ATP-grasp_4; cl03087 281090003535 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 281090003536 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 281090003537 active site 281090003538 catalytic residues [active] 281090003539 metal binding site [ion binding]; metal-binding site 281090003540 homodimer binding site [polypeptide binding]; other site 281090003541 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 281090003542 carboxyltransferase (CT) interaction site; other site 281090003543 biotinylation site [posttranslational modification]; other site 281090003544 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 281090003545 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 281090003546 Magnesium ion binding site [ion binding]; other site 281090003547 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 281090003548 DNA binding residues [nucleotide binding] 281090003549 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 281090003550 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 281090003551 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 281090003552 DNA binding residues [nucleotide binding] 281090003553 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 281090003554 phosphopeptide binding site; other site 281090003555 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 281090003556 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 281090003557 RNA binding surface [nucleotide binding]; other site 281090003558 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 281090003559 HSP70 interaction site [polypeptide binding]; other site 281090003560 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 281090003561 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_16; cd07263 281090003562 UbiA prenyltransferase family; Region: UbiA; cl00337 281090003563 lycopene cyclase domain; Region: CarR_dom_SF; TIGR03462 281090003564 phytoene desaturase; Region: crtI_fam; TIGR02734 281090003565 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090003566 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 281090003567 substrate binding pocket [chemical binding]; other site 281090003568 substrate-Mg2+ binding site; other site 281090003569 aspartate-rich region 1; other site 281090003570 aspartate-rich region 2; other site 281090003571 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 281090003572 substrate binding pocket [chemical binding]; other site 281090003573 chain length determination region; other site 281090003574 substrate-Mg2+ binding site; other site 281090003575 catalytic residues [active] 281090003576 aspartate-rich region 1; other site 281090003577 active site lid residues [active] 281090003578 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 281090003579 aspartate-rich region 2; other site 281090003580 Transcriptional regulators [Transcription]; Region: MarR; COG1846 281090003581 Helix-turn-helix domains; Region: HTH; cl00088 281090003582 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090003583 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 281090003584 NAD(P) binding site [chemical binding]; other site 281090003585 active site 281090003586 Protein of unknown function (DUF2867); Region: DUF2867; pfam11066 281090003587 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 281090003588 RNA polymerase sigma factor SigB; Reviewed; Region: PRK07921 281090003589 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 281090003590 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 281090003591 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 281090003592 DNA binding residues [nucleotide binding] 281090003593 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 281090003594 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 281090003595 putative DNA binding site [nucleotide binding]; other site 281090003596 putative homodimer interface [polypeptide binding]; other site 281090003597 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 281090003598 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 281090003599 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein. ABC...; Region: ABC_MetN_methionine_transporter; cd03258 281090003600 Walker A/P-loop; other site 281090003601 ATP binding site [chemical binding]; other site 281090003602 Q-loop/lid; other site 281090003603 ABC transporter signature motif; other site 281090003604 Walker B; other site 281090003605 D-loop; other site 281090003606 H-loop/switch region; other site 281090003607 NIL domain; Region: NIL; cl09633 281090003608 NMT1-like family; Region: NMT1_2; cl15260 281090003609 Predicted nuclease (RecB family) [General function prediction only]; Region: COG2251 281090003610 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 281090003611 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 281090003612 Family description; Region: UvrD_C_2; cl15862 281090003613 Helix-turn-helix domains; Region: HTH; cl00088 281090003614 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 281090003615 Integrase core domain; Region: rve; cl01316 281090003616 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 281090003617 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 281090003618 catalytic residues [active] 281090003619 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 281090003620 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 281090003621 putative active site [active] 281090003622 oxyanion strand; other site 281090003623 catalytic triad [active] 281090003624 imidazoleglycerol-phosphate dehydratase; Validated; Region: hisB; PRK00951 281090003625 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 281090003626 putative active site pocket [active] 281090003627 4-fold oligomerization interface [polypeptide binding]; other site 281090003628 metal binding residues [ion binding]; metal-binding site 281090003629 3-fold/trimer interface [polypeptide binding]; other site 281090003630 histidinol-phosphate aminotransferase; Provisional; Region: PRK03317 281090003631 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 281090003632 pyridoxal 5'-phosphate binding site [chemical binding]; other site 281090003633 homodimer interface [polypeptide binding]; other site 281090003634 catalytic residue [active] 281090003635 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 281090003636 putative peptidoglycan binding site; other site 281090003637 LexA repressor; Validated; Region: PRK00215 281090003638 Helix-turn-helix domains; Region: HTH; cl00088 281090003639 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 281090003640 Catalytic site [active] 281090003641 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 281090003642 DNA-binding site [nucleotide binding]; DNA binding site 281090003643 FCD domain; Region: FCD; cl11656 281090003644 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 281090003645 putative substrate translocation pore; other site 281090003646 GTPases [General function prediction only]; Region: HflX; COG2262 281090003647 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 281090003648 HflX GTPase family; Region: HflX; cd01878 281090003649 G1 box; other site 281090003650 GTP/Mg2+ binding site [chemical binding]; other site 281090003651 Switch I region; other site 281090003652 G2 box; other site 281090003653 G3 box; other site 281090003654 Switch II region; other site 281090003655 G4 box; other site 281090003656 G5 box; other site 281090003657 SAM-dependent 23S ribosomal RNA mG1835 methyltransferase; Provisional; Region: PRK15001 281090003658 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 281090003659 S-adenosylmethionine binding site [chemical binding]; other site 281090003660 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 281090003661 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 281090003662 Diaminopimelate epimerase; Region: DAP_epimerase; cl14668 281090003663 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 281090003664 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14326 281090003665 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 281090003666 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 281090003667 FeS/SAM binding site; other site 281090003668 RecX family; Region: RecX; cl00936 281090003669 RecX family; Region: RecX; cl00936 281090003670 recombinase A; Provisional; Region: recA; PRK09354 281090003671 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 281090003672 hexamer interface [polypeptide binding]; other site 281090003673 Walker A motif; other site 281090003674 ATP binding site [chemical binding]; other site 281090003675 Walker B motif; other site 281090003676 Protein of unknown function (DUF3046); Region: DUF3046; pfam11248 281090003677 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 281090003678 non-specific DNA binding site [nucleotide binding]; other site 281090003679 salt bridge; other site 281090003680 sequence-specific DNA binding site [nucleotide binding]; other site 281090003681 Competence-damaged protein; Region: CinA; cl00666 281090003682 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 281090003683 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 281090003684 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 281090003685 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 281090003686 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 281090003687 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 281090003688 OsmC-like protein; Region: OsmC; cl00767 281090003689 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090003690 TIGR01777 family protein; Region: yfcH 281090003691 NAD(P) binding site [chemical binding]; other site 281090003692 active site 281090003693 dihydrodipicolinate reductase; Provisional; Region: PRK00048 281090003694 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090003695 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 281090003696 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 281090003697 catalytic core [active] 281090003698 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 281090003699 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 281090003700 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 281090003701 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 281090003702 Helix-turn-helix domains; Region: HTH; cl00088 281090003703 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 281090003704 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 281090003705 active site 281090003706 catalytic tetrad [active] 281090003707 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 281090003708 dimer interface [polypeptide binding]; other site 281090003709 Citrate synthase; Region: Citrate_synt; pfam00285 281090003710 active site 281090003711 citrylCoA binding site [chemical binding]; other site 281090003712 NADH binding [chemical binding]; other site 281090003713 cationic pore residues; other site 281090003714 oxalacetate/citrate binding site [chemical binding]; other site 281090003715 coenzyme A binding site [chemical binding]; other site 281090003716 catalytic triad [active] 281090003717 succinyldiaminopimelate transaminase; Region: DapC_actino; TIGR03539 281090003718 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 281090003719 pyridoxal 5'-phosphate binding site [chemical binding]; other site 281090003720 homodimer interface [polypeptide binding]; other site 281090003721 catalytic residue [active] 281090003722 Ferredoxin [Energy production and conversion]; Region: COG1146 281090003723 4Fe-4S binding domain; Region: Fer4; cl02805 281090003724 Iron permease FTR1 family; Region: FTR1; cl00475 281090003725 Predicted periplasmic lipoprotein involved in iron transport [Inorganic ion transport and metabolism]; Region: COG2822 281090003726 Imelysin; Region: Peptidase_M75; cl09159 281090003727 Tat-translocated enzyme; Region: tat_substr_1; TIGR01412 281090003728 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 281090003729 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 281090003730 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 281090003731 G1 box; other site 281090003732 GTP/Mg2+ binding site [chemical binding]; other site 281090003733 G2 box; other site 281090003734 Switch I region; other site 281090003735 G3 box; other site 281090003736 Switch II region; other site 281090003737 G4 box; other site 281090003738 G5 box; other site 281090003739 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 281090003740 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 281090003741 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 281090003742 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 281090003743 dimer interface [polypeptide binding]; other site 281090003744 conserved gate region; other site 281090003745 putative PBP binding loops; other site 281090003746 ABC-ATPase subunit interface; other site 281090003747 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; cd00995 281090003748 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 281090003749 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 281090003750 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 281090003751 Walker A/P-loop; other site 281090003752 ATP binding site [chemical binding]; other site 281090003753 Q-loop/lid; other site 281090003754 ABC transporter signature motif; other site 281090003755 Walker B; other site 281090003756 D-loop; other site 281090003757 H-loop/switch region; other site 281090003758 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 281090003759 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 281090003760 Walker A/P-loop; other site 281090003761 ATP binding site [chemical binding]; other site 281090003762 Q-loop/lid; other site 281090003763 ABC transporter signature motif; other site 281090003764 Walker B; other site 281090003765 D-loop; other site 281090003766 H-loop/switch region; other site 281090003767 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 281090003768 Protein of unknown function (DUF2581); Region: DUF2581; pfam10756 281090003769 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 281090003770 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 281090003771 dimer interface [polypeptide binding]; other site 281090003772 conserved gate region; other site 281090003773 putative PBP binding loops; other site 281090003774 ABC-ATPase subunit interface; other site 281090003775 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 281090003776 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 281090003777 dimer interface [polypeptide binding]; other site 281090003778 ABC-ATPase subunit interface; other site 281090003779 putative PBP binding loops; other site 281090003780 The substrate-binding domain of mycobacterial lipoprotein Lpqw contains type 2 periplasmic binding fold; Region: PBP2_Lpqw; cd08501 281090003781 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 281090003782 CAAX protease self-immunity; Region: Abi; cl00558 281090003783 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 281090003784 Helix-turn-helix domains; Region: HTH; cl00088 281090003785 short chain dehydrogenase; Provisional; Region: PRK06523 281090003786 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090003787 NAD(P) binding site [chemical binding]; other site 281090003788 active site 281090003789 Quinolinate synthetase A protein; Region: NadA; cl00420 281090003790 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK06543 281090003791 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 281090003792 dimerization interface [polypeptide binding]; other site 281090003793 active site 281090003794 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 281090003795 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 281090003796 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 281090003797 catalytic residue [active] 281090003798 LabA_like proteins; Region: LabA_like/DUF88; cl10034 281090003799 putative metal binding site [ion binding]; other site 281090003800 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 281090003801 Helix-turn-helix domains; Region: HTH; cl00088 281090003802 GTP-binding protein YchF; Reviewed; Region: PRK09601 281090003803 YchF GTPase; Region: YchF; cd01900 281090003804 G1 box; other site 281090003805 GTP/Mg2+ binding site [chemical binding]; other site 281090003806 Switch I region; other site 281090003807 G2 box; other site 281090003808 Switch II region; other site 281090003809 G3 box; other site 281090003810 G4 box; other site 281090003811 G5 box; other site 281090003812 TGS_YchF_C: This subfamily represents TGS domain-containing YchF GTP-binding protein, a universally conserved GTPase whose function is unknown. The N-terminal domain of the YchF protein belongs to the Obg-like family of GTPases, and some members of the...; Region: TGS_YchF_C; cd04867 281090003813 DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily; Region: DnaQ_like_exo; cl10012 281090003814 active site 281090003815 catalytic site [active] 281090003816 substrate binding site [chemical binding]; other site 281090003817 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 281090003818 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 281090003819 putative substrate translocation pore; other site 281090003820 RmuC family; Region: RmuC; pfam02646 281090003821 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 281090003822 putative active site [active] 281090003823 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 281090003824 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 281090003825 active site 281090003826 intersubunit interface [polypeptide binding]; other site 281090003827 zinc binding site [ion binding]; other site 281090003828 Na+ binding site [ion binding]; other site 281090003829 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 281090003830 triphenylmethane reductase (TMR)-like proteins, NMRa-like, atypical (a) SDRs; Region: TMR_SDR_a; cd05269 281090003831 NADP binding site [chemical binding]; other site 281090003832 LytB protein; Region: LYTB; cl00507 281090003833 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 281090003834 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 281090003835 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 281090003836 generic binding surface II; other site 281090003837 generic binding surface I; other site 281090003838 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 281090003839 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 281090003840 active site clefts [active] 281090003841 zinc binding site [ion binding]; other site 281090003842 dimer interface [polypeptide binding]; other site 281090003843 fumarate hydratase; Reviewed; Region: fumC; PRK00485 281090003844 Class II fumarases; Region: Fumarase_classII; cd01362 281090003845 active site 281090003846 tetramer interface [polypeptide binding]; other site 281090003847 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 281090003848 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 281090003849 putative active site [active] 281090003850 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 281090003851 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 281090003852 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 281090003853 catalytic residue [active] 281090003854 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 281090003855 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 281090003856 catalytic residue [active] 281090003857 putative FPP diphosphate binding site; other site 281090003858 putative FPP binding hydrophobic cleft; other site 281090003859 dimer interface [polypeptide binding]; other site 281090003860 putative IPP diphosphate binding site; other site 281090003861 Haemolysin-III related; Region: HlyIII; cl03831 281090003862 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 281090003863 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 281090003864 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 281090003865 threonine dehydratase; Provisional; Region: PRK08198 281090003866 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 281090003867 tetramer interface [polypeptide binding]; other site 281090003868 pyridoxal 5'-phosphate binding site [chemical binding]; other site 281090003869 catalytic residue [active] 281090003870 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 281090003871 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 281090003872 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 281090003873 Protein of unknown function (DUF1006); Region: DUF1006; cl15826 281090003874 LemA family; Region: LemA; cl00742 281090003875 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3012 281090003876 SEC-C motif; Region: SEC-C; pfam02810 281090003877 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 281090003878 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 281090003879 substrate binding site [chemical binding]; other site 281090003880 dimer interface [polypeptide binding]; other site 281090003881 ATP binding site [chemical binding]; other site 281090003882 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 281090003883 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 281090003884 ADP-ribosylglycohydrolase; Region: ADP_ribosyl_GH; cl00614 281090003885 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 281090003886 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 281090003887 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 281090003888 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 281090003889 ABC-ATPase subunit interface; other site 281090003890 Transcriptional regulators [Transcription]; Region: PurR; COG1609 281090003891 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 281090003892 DNA binding site [nucleotide binding] 281090003893 domain linker motif; other site 281090003894 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 281090003895 ligand binding site [chemical binding]; other site 281090003896 dimerization interface [polypeptide binding]; other site 281090003897 Uncharacterized conserved protein [Function unknown]; Region: COG1739 281090003898 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 281090003899 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 281090003900 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 281090003901 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 281090003902 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 281090003903 active site 281090003904 catalytic residues [active] 281090003905 Protein of unknown function (DUF501); Region: DUF501; cl00652 281090003906 Septum formation initiator; Region: DivIC; cl11433 281090003907 enolase; Provisional; Region: eno; PRK00077 281090003908 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 281090003909 dimer interface [polypeptide binding]; other site 281090003910 metal binding site [ion binding]; metal-binding site 281090003911 substrate binding pocket [chemical binding]; other site 281090003912 HTH-like domain; Region: HTH_21; pfam13276 281090003913 Integrase core domain; Region: rve; cl01316 281090003914 histidyl-tRNA synthetase; Region: hisS; TIGR00442 281090003915 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 281090003916 dimer interface [polypeptide binding]; other site 281090003917 motif 1; other site 281090003918 active site 281090003919 motif 2; other site 281090003920 motif 3; other site 281090003921 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 281090003922 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 281090003923 Walker A/P-loop; other site 281090003924 ATP binding site [chemical binding]; other site 281090003925 Q-loop/lid; other site 281090003926 ABC transporter signature motif; other site 281090003927 Walker B; other site 281090003928 D-loop; other site 281090003929 H-loop/switch region; other site 281090003930 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 281090003931 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 281090003932 putative PBP binding regions; other site 281090003933 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 281090003934 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 281090003935 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 281090003936 siderophore binding site; other site 281090003937 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: PRK12334 281090003938 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00345 281090003939 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 281090003940 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 281090003941 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 281090003942 ATP binding site [chemical binding]; other site 281090003943 putative Mg++ binding site [ion binding]; other site 281090003944 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 281090003945 nucleotide binding region [chemical binding]; other site 281090003946 ATP-binding site [chemical binding]; other site 281090003947 TRCF domain; Region: TRCF; cl04088 281090003948 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 281090003949 putative active site [active] 281090003950 catalytic residue [active] 281090003951 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 281090003952 5S rRNA interface [nucleotide binding]; other site 281090003953 CTC domain interface [polypeptide binding]; other site 281090003954 L16 interface [polypeptide binding]; other site 281090003955 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 281090003956 metal binding site [ion binding]; metal-binding site 281090003957 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 281090003958 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090003959 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 281090003960 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 281090003961 ligand binding site [chemical binding]; other site 281090003962 dimerization interface [polypeptide binding]; other site 281090003963 Glucuronate isomerase; Region: UxaC; cl00829 281090003964 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090003965 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 281090003966 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 281090003967 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 281090003968 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 281090003969 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 281090003970 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 281090003971 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK03092 281090003972 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 281090003973 active site 281090003974 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14352 281090003975 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 281090003976 Substrate binding site; other site 281090003977 Mg++ binding site; other site 281090003978 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 281090003979 active site 281090003980 substrate binding site [chemical binding]; other site 281090003981 CoA binding site [chemical binding]; other site 281090003982 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 281090003983 Helix-turn-helix domains; Region: HTH; cl00088 281090003984 CDP-Glycerol:Poly(glycerophosphate) glycerophosphotransferase; Region: Glyphos_transf; pfam04464 281090003985 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 281090003986 putative ADP-binding pocket [chemical binding]; other site 281090003987 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 281090003988 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 281090003989 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 281090003990 ABC transporter; Region: ABC_tran_2; pfam12848 281090003991 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 281090003992 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK03188 281090003993 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090003994 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 281090003995 active site 281090003996 methionyl-tRNA synthetase; Reviewed; Region: PRK11893 281090003997 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 281090003998 active site 281090003999 HIGH motif; other site 281090004000 KMSKS motif; other site 281090004001 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 281090004002 tRNA binding surface [nucleotide binding]; other site 281090004003 anticodon binding site; other site 281090004004 Predicted methyltransferases [General function prediction only]; Region: COG0313 281090004005 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 281090004006 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 281090004007 Dolichyl-phosphate-mannose--protein O-mannosyl transferase [Posttranslational modification, protein turnover, chaperones]; Region: PMT1; COG1928 281090004008 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 281090004009 N-acetylmuramic acid 6-phosphate etherase. Members of this family contain the SIS (Sugar ISomerase) domain. The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. The bacterial cell wall sugar N-acetylmuramic acid...; Region: SIS_Etherase; cd05007 281090004010 putative active site [active] 281090004011 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 281090004012 catalytic residues [active] 281090004013 dimer interface [polypeptide binding]; other site 281090004014 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 281090004015 pyridoxal 5'-phosphate binding site [chemical binding]; other site 281090004016 catalytic residue [active] 281090004017 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 281090004018 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 281090004019 active site 281090004020 non-prolyl cis peptide bond; other site 281090004021 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 281090004022 dimer interface [polypeptide binding]; other site 281090004023 pyridoxal 5'-phosphate binding site [chemical binding]; other site 281090004024 catalytic residue [active] 281090004025 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 281090004026 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 281090004027 dimer interface [polypeptide binding]; other site 281090004028 putative radical transfer pathway; other site 281090004029 diiron center [ion binding]; other site 281090004030 tyrosyl radical; other site 281090004031 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK06539 281090004032 ATP cone domain; Region: ATP-cone; pfam03477 281090004033 Class I ribonucleotide reductase; Region: RNR_I; cd01679 281090004034 active site 281090004035 dimer interface [polypeptide binding]; other site 281090004036 catalytic residues [active] 281090004037 effector binding site; other site 281090004038 R2 peptide binding site; other site 281090004039 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 281090004040 putative substrate translocation pore; other site 281090004041 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 281090004042 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 281090004043 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 281090004044 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 281090004045 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 281090004046 Similar to Prolidase and Aminopeptidase P. The members of this subfamily presumably catalyse hydrolysis of Xaa-Pro dipeptides and/or release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP-like; cd01092 281090004047 active site 281090004048 Protein of unknown function (DUF3054); Region: DUF3054; pfam11255 281090004049 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 281090004050 NlpC/P60 family; Region: NLPC_P60; cl11438 281090004051 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 281090004052 Helix-turn-helix domains; Region: HTH; cl00088 281090004053 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 281090004054 FeoA domain; Region: FeoA; cl00838 281090004055 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 281090004056 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 281090004057 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 281090004058 catalytic residue [active] 281090004059 Protein of unknown function (DUF3027); Region: DUF3027; pfam11228 281090004060 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 281090004061 DNA-binding site [nucleotide binding]; DNA binding site 281090004062 RNA-binding motif; other site 281090004063 Helicase conserved C-terminal domain; Region: Helicase_C_3; pfam13625 281090004064 Helicase conserved C-terminal domain; Region: Helicase_C_3; pfam13625 281090004065 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 281090004066 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 281090004067 ATP binding site [chemical binding]; other site 281090004068 putative Mg++ binding site [ion binding]; other site 281090004069 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 281090004070 nucleotide binding region [chemical binding]; other site 281090004071 ATP-binding site [chemical binding]; other site 281090004072 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 281090004073 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 281090004074 dihydropteroate synthase; Region: DHPS; TIGR01496 281090004075 substrate binding pocket [chemical binding]; other site 281090004076 dimer interface [polypeptide binding]; other site 281090004077 inhibitor binding site; inhibition site 281090004078 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 281090004079 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 281090004080 active site 281090004081 phosphorylation site [posttranslational modification] 281090004082 intermolecular recognition site; other site 281090004083 dimerization interface [polypeptide binding]; other site 281090004084 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 281090004085 DNA binding site [nucleotide binding] 281090004086 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 281090004087 dimerization interface [polypeptide binding]; other site 281090004088 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 281090004089 dimer interface [polypeptide binding]; other site 281090004090 phosphorylation site [posttranslational modification] 281090004091 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 281090004092 ATP binding site [chemical binding]; other site 281090004093 Mg2+ binding site [ion binding]; other site 281090004094 G-X-G motif; other site 281090004095 Ribbon-helix-helix protein, copG family; Region: RHH_1; cl15783 281090004096 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 281090004097 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 281090004098 ring oligomerisation interface [polypeptide binding]; other site 281090004099 ATP/Mg binding site [chemical binding]; other site 281090004100 stacking interactions; other site 281090004101 hinge regions; other site 281090004102 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 281090004103 DNA-binding site [nucleotide binding]; DNA binding site 281090004104 RNA-binding motif; other site 281090004105 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 281090004106 Protein of unknown function (DUF3263); Region: DUF3263; pfam11662 281090004107 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 281090004108 SelR domain; Region: SelR; pfam01641 281090004109 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 281090004110 putative FMN binding site [chemical binding]; other site 281090004111 Uncharacterized protein, probably involved in trehalose biosynthesis [Carbohydrate transport and metabolism]; Region: Ble; cl01286 281090004112 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 281090004113 Catalytic site [active] 281090004114 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 281090004115 FAD binding pocket [chemical binding]; other site 281090004116 FAD binding motif [chemical binding]; other site 281090004117 phosphate binding motif [ion binding]; other site 281090004118 NAD binding pocket [chemical binding]; other site 281090004119 YCII-related domain; Region: YCII; cl00999 281090004120 Response regulator of citrate/malate metabolism [Transcription / Signal transduction mechanisms]; Region: CitB; COG4565 281090004121 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 281090004122 active site 281090004123 dimerization interface [polypeptide binding]; other site 281090004124 Signal transduction histidine kinase regulating citrate/malate metabolism [Signal transduction mechanisms]; Region: CitA; COG3290 281090004125 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 281090004126 ATP binding site [chemical binding]; other site 281090004127 Mg2+ binding site [ion binding]; other site 281090004128 G-X-G motif; other site 281090004129 C4-dicarboxylate anaerobic carrier; Region: DcuC; cl15356 281090004130 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 281090004131 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 281090004132 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 281090004133 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 281090004134 Walker A/P-loop; other site 281090004135 ATP binding site [chemical binding]; other site 281090004136 Q-loop/lid; other site 281090004137 ABC transporter signature motif; other site 281090004138 Walker B; other site 281090004139 D-loop; other site 281090004140 H-loop/switch region; other site 281090004141 TOBE domain; Region: TOBE_2; cl01440 281090004142 Domain of unknown function (DUF4032); Region: DUF4032; pfam13224 281090004143 Domain of unknown function (DUF336); Region: DUF336; cl01249 281090004144 Histidine kinase; Region: HisKA_3; pfam07730 281090004145 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 281090004146 ATP binding site [chemical binding]; other site 281090004147 Mg2+ binding site [ion binding]; other site 281090004148 G-X-G motif; other site 281090004149 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 281090004150 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 281090004151 active site 281090004152 phosphorylation site [posttranslational modification] 281090004153 intermolecular recognition site; other site 281090004154 dimerization interface [polypeptide binding]; other site 281090004155 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 281090004156 DNA binding residues [nucleotide binding] 281090004157 dimerization interface [polypeptide binding]; other site 281090004158 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 281090004159 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 281090004160 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 281090004161 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 281090004162 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 281090004163 active site 281090004164 HIGH motif; other site 281090004165 nucleotide binding site [chemical binding]; other site 281090004166 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 281090004167 KMSKS motif; other site 281090004168 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 281090004169 tRNA binding surface [nucleotide binding]; other site 281090004170 anticodon binding site; other site 281090004171 bifunctional 2-C-methyl-D-erythritol 4-phosphate cytidylyltransferase/2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase protein; Provisional; Region: ispDF; PRK09382 281090004172 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 281090004173 substrate binding site; other site 281090004174 dimer interface; other site 281090004175 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 281090004176 homotrimer interaction site [polypeptide binding]; other site 281090004177 zinc binding site [ion binding]; other site 281090004178 CDP-binding sites; other site 281090004179 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 281090004180 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 281090004181 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 281090004182 active site 281090004183 phosphorylation site [posttranslational modification] 281090004184 intermolecular recognition site; other site 281090004185 dimerization interface [polypeptide binding]; other site 281090004186 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 281090004187 DNA binding site [nucleotide binding] 281090004188 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 281090004189 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 281090004190 dimer interface [polypeptide binding]; other site 281090004191 phosphorylation site [posttranslational modification] 281090004192 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 281090004193 ATP binding site [chemical binding]; other site 281090004194 Mg2+ binding site [ion binding]; other site 281090004195 G-X-G motif; other site 281090004196 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 281090004197 PhoU domain; Region: PhoU; pfam01895 281090004198 PhoU domain; Region: PhoU; pfam01895 281090004199 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 281090004200 catalytic core [active] 281090004201 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 281090004202 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 281090004203 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 281090004204 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 281090004205 nitrobindin heme-binding domain; Region: nitrobindin; cd07828 281090004206 heme-binding site [chemical binding]; other site 281090004207 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 281090004208 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 281090004209 DNA binding site [nucleotide binding] 281090004210 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 281090004211 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 281090004212 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 281090004213 dimer interface [polypeptide binding]; other site 281090004214 conserved gate region; other site 281090004215 putative PBP binding loops; other site 281090004216 ABC-ATPase subunit interface; other site 281090004217 phosphate ABC transporter, permease protein PstA; Region: 3a0107s02c; TIGR00974 281090004218 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 281090004219 dimer interface [polypeptide binding]; other site 281090004220 conserved gate region; other site 281090004221 putative PBP binding loops; other site 281090004222 ABC-ATPase subunit interface; other site 281090004223 phosphate transporter ATP-binding protein; Provisional; Region: PRK14241 281090004224 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 281090004225 Walker A/P-loop; other site 281090004226 ATP binding site [chemical binding]; other site 281090004227 Q-loop/lid; other site 281090004228 ABC transporter signature motif; other site 281090004229 Walker B; other site 281090004230 D-loop; other site 281090004231 H-loop/switch region; other site 281090004232 Anti-sigma-K factor rskA; Region: RskA; pfam10099 281090004233 RNA polymerase sigma factor SigK; Reviewed; Region: PRK09646 281090004234 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 281090004235 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 281090004236 DNA binding residues [nucleotide binding] 281090004237 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 281090004238 Putative ClC chloride channel. Clc proteins are putative halogen ion (Cl-, Br- and I-) transporters found in eubacteria. They belong to the ClC superfamily of halogen ion channels, which share a unique double-barreled architecture and voltage-dependent...; Region: ClC_like; cd01033 281090004239 putative ion selectivity filter; other site 281090004240 putative pore gating glutamate residue; other site 281090004241 Protein of unknown function (DUF4232); Region: DUF4232; pfam14016 281090004242 Ca2+/H+ antiporter [Inorganic ion transport and metabolism]; Region: ChaA; COG0387 281090004243 Sodium/calcium exchanger protein; Region: Na_Ca_ex; pfam01699 281090004244 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 281090004245 Helix-turn-helix domains; Region: HTH; cl00088 281090004246 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 281090004247 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 281090004248 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; cl02529 281090004249 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 281090004250 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 281090004251 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 281090004252 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 281090004253 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 281090004254 trimer interface [polypeptide binding]; other site 281090004255 putative metal binding site [ion binding]; other site 281090004256 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_7; cd08353 281090004257 putative dimer interface [polypeptide binding]; other site 281090004258 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 281090004259 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14193 281090004260 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 281090004261 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 281090004262 homodimer interface [polypeptide binding]; other site 281090004263 NADP binding site [chemical binding]; other site 281090004264 substrate binding site [chemical binding]; other site 281090004265 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 281090004266 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 281090004267 dimer interface [polypeptide binding]; other site 281090004268 glycine-pyridoxal phosphate binding site [chemical binding]; other site 281090004269 active site 281090004270 folate binding site [chemical binding]; other site 281090004271 Glycosyl hydrolase family 20, domain 2; Region: Glyco_hydro_20b; pfam02838 281090004272 A subgroup of the Glycosyl hydrolase family 20 (GH20) catalytic domain found in proteins similar to the N-acetylhexosaminidase from Streptomyces plicatus (SpHex). SpHex catalyzes the hydrolysis of N-acetyl-beta-hexosaminides. An Asp residue within the...; Region: GH20_SpHex_like; cd06568 281090004273 Glycosyl hydrolase family 20, catalytic domain; Region: Glyco_hydro_20; pfam00728 281090004274 active site 281090004275 ArsA ATPase functionas as an efflux pump located on the inner membrane of the cell. This ATP-driven oxyanion pump catalyzes the extrusion of arsenite, antimonite and arsenate. Maintenance of a low intracellular concentration of oxyanion produces...; Region: ArsA; cd02035 281090004276 Nucleotide binding site [chemical binding]; other site 281090004277 DTAP/Switch II; other site 281090004278 Switch I; other site 281090004279 ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]; Region: CydD; COG4988 281090004280 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 281090004281 Walker A/P-loop; other site 281090004282 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 281090004283 DNA binding residues [nucleotide binding] 281090004284 dimerization interface [polypeptide binding]; other site 281090004285 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 281090004286 RHS Repeat; Region: RHS_repeat; cl11982 281090004287 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 281090004288 RHS Repeat; Region: RHS_repeat; cl11982 281090004289 RHS Repeat; Region: RHS_repeat; cl11982 281090004290 RHS Repeat; Region: RHS_repeat; cl11982 281090004291 Helix-turn-helix domains; Region: HTH; cl00088 281090004292 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 281090004293 Integrase core domain; Region: rve; cl01316 281090004294 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 281090004295 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 281090004296 dimer interface [polypeptide binding]; other site 281090004297 phosphorylation site [posttranslational modification] 281090004298 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 281090004299 ATP binding site [chemical binding]; other site 281090004300 Mg2+ binding site [ion binding]; other site 281090004301 G-X-G motif; other site 281090004302 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 281090004303 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 281090004304 active site 281090004305 phosphorylation site [posttranslational modification] 281090004306 intermolecular recognition site; other site 281090004307 dimerization interface [polypeptide binding]; other site 281090004308 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 281090004309 DNA binding site [nucleotide binding] 281090004310 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 281090004311 ABC transporter signature motif; other site 281090004312 Walker B; other site 281090004313 D-loop; other site 281090004314 H-loop/switch region; other site 281090004315 ribosomal protein L20; Region: rpl20; CHL00068 281090004316 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 281090004317 23S rRNA binding site [nucleotide binding]; other site 281090004318 L21 binding site [polypeptide binding]; other site 281090004319 L13 binding site [polypeptide binding]; other site 281090004320 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 281090004321 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 281090004322 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 281090004323 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 281090004324 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 281090004325 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 281090004326 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 281090004327 ligand binding site [chemical binding]; other site 281090004328 active site 281090004329 UGI interface [polypeptide binding]; other site 281090004330 catalytic site [active] 281090004331 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 281090004332 active site 281090004333 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK07812 281090004334 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 281090004335 homodimer interface [polypeptide binding]; other site 281090004336 substrate-cofactor binding pocket; other site 281090004337 pyridoxal 5'-phosphate binding site [chemical binding]; other site 281090004338 catalytic residue [active] 281090004339 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 281090004340 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090004341 NAD(P) binding site [chemical binding]; other site 281090004342 active site 281090004343 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 281090004344 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 281090004345 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 281090004346 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 281090004347 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 281090004348 Signal receiver domain; originally thought to be unique to bacteria (CheY, OmpR, NtrC, and PhoB), now recently identified in eukaroytes ETR1 Arabidopsis thaliana; this domain receives the signal from the sensor partner in a two-component systems; Region: REC; cl09944 281090004349 active site 281090004350 phosphorylation site [posttranslational modification] 281090004351 intermolecular recognition site; other site 281090004352 dimerization interface [polypeptide binding]; other site 281090004353 Helix-turn-helix domains; Region: HTH; cl00088 281090004354 DNA binding residues [nucleotide binding] 281090004355 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 281090004356 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 281090004357 active site 281090004358 ATP binding site [chemical binding]; other site 281090004359 substrate binding site [chemical binding]; other site 281090004360 activation loop (A-loop); other site 281090004361 Domain of unknown function DUF77; Region: DUF77; cl00307 281090004362 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 281090004363 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 281090004364 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 281090004365 motif II; other site 281090004366 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 281090004367 active site 281090004368 FMN binding site [chemical binding]; other site 281090004369 substrate binding site [chemical binding]; other site 281090004370 homotetramer interface [polypeptide binding]; other site 281090004371 catalytic residue [active] 281090004372 Domain of unknown function DUF21; Region: DUF21; pfam01595 281090004373 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 281090004374 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 281090004375 Domain of unknown function DUF21; Region: DUF21; pfam01595 281090004376 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 281090004377 Transporter associated domain; Region: CorC_HlyC; cl08393 281090004378 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK07807 281090004379 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 281090004380 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 281090004381 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 281090004382 active site 281090004383 alpha-ketoglutarate decarboxylase; Reviewed; Region: kgd; PRK12270 281090004384 alpha-ketoglutarate decarboxylase; Reviewed; Region: kgd; PRK12270 281090004385 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 281090004386 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 281090004387 TPP-binding site [chemical binding]; other site 281090004388 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 281090004389 RNA polymerase sigma-70 factor, TIGR02947 family; Region: SigH_actino 281090004390 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 281090004391 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 281090004392 DNA binding residues [nucleotide binding] 281090004393 3-phosphoshikimate 1-carboxyvinyltransferase; Region: aroA; TIGR01356 281090004394 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 281090004395 hinge; other site 281090004396 active site 281090004397 Predicted GTPases [General function prediction only]; Region: COG1162 281090004398 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 281090004399 GTPase/Zn-binding domain interface [polypeptide binding]; other site 281090004400 GTP/Mg2+ binding site [chemical binding]; other site 281090004401 G4 box; other site 281090004402 G5 box; other site 281090004403 G1 box; other site 281090004404 Switch I region; other site 281090004405 G2 box; other site 281090004406 G3 box; other site 281090004407 Switch II region; other site 281090004408 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 281090004409 catalytic triad [active] 281090004410 AhpC/TSA antioxidant enzyme; Region: AhpC-TSA_2; pfam13911 281090004411 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 281090004412 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 281090004413 Walker A/P-loop; other site 281090004414 ATP binding site [chemical binding]; other site 281090004415 Q-loop/lid; other site 281090004416 ABC transporter signature motif; other site 281090004417 Walker B; other site 281090004418 D-loop; other site 281090004419 H-loop/switch region; other site 281090004420 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 281090004421 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 281090004422 nickel import ATP-binding protein NikD; Region: nickel_nikD; TIGR02770 281090004423 Walker A/P-loop; other site 281090004424 ATP binding site [chemical binding]; other site 281090004425 Q-loop/lid; other site 281090004426 ABC transporter signature motif; other site 281090004427 Walker B; other site 281090004428 D-loop; other site 281090004429 H-loop/switch region; other site 281090004430 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 281090004431 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 281090004432 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 281090004433 dimer interface [polypeptide binding]; other site 281090004434 conserved gate region; other site 281090004435 putative PBP binding loops; other site 281090004436 ABC-ATPase subunit interface; other site 281090004437 Protein of unknown function (DUF1684); Region: DUF1684; cl01327 281090004438 Transcription factor WhiB; Region: Whib; pfam02467 281090004439 Signal transduction histidine kinase; Region: H_kinase_N; pfam12282 281090004440 PAS fold; Region: PAS_4; pfam08448 281090004441 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 281090004442 Histidine kinase; Region: HisKA_2; cl06527 281090004443 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 281090004444 ATP binding site [chemical binding]; other site 281090004445 Mg2+ binding site [ion binding]; other site 281090004446 G-X-G motif; other site 281090004447 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 281090004448 dimer interface [polypeptide binding]; other site 281090004449 active site 281090004450 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 281090004451 N-acetylmannosamine kinase; Provisional; Region: PRK05082 281090004452 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 281090004453 putative substrate binding site [chemical binding]; other site 281090004454 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 281090004455 hypothetical protein; Provisional; Region: PRK08185 281090004456 intersubunit interface [polypeptide binding]; other site 281090004457 active site 281090004458 zinc binding site [ion binding]; other site 281090004459 Na+ binding site [ion binding]; other site 281090004460 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 281090004461 Helix-turn-helix domains; Region: HTH; cl00088 281090004462 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 281090004463 N-acetylglucosamine-6-phosphate deacetylase [Carbohydrate transport and metabolism]; Region: NagA; COG1820 281090004464 N-acetylglucosamine-6-phosphate deacetylase, NagA, catalyzes the hydrolysis of the N-acetyl group of N-acetyl-glucosamine-6-phosphate (GlcNAc-6-P) to glucosamine 6-phosphate and acetate. This is the first committed step in the biosynthetic pathway to...; Region: NagA; cd00854 281090004465 active site 281090004466 dimer interface [polypeptide binding]; other site 281090004467 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 281090004468 Putative zinc-finger; Region: zf-HC2; cl15806 281090004469 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 281090004470 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 281090004471 putative substrate translocation pore; other site 281090004472 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 281090004473 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 281090004474 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 281090004475 putative active site [active] 281090004476 putative substrate binding site [chemical binding]; other site 281090004477 putative cosubstrate binding site; other site 281090004478 catalytic site [active] 281090004479 Protein of unknown function (DUF2568); Region: DUF2568; pfam10823 281090004480 Vitamin K-dependent gamma-carboxylase; Region: VKG_Carbox; cl02773 281090004481 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation', the process of becoming...; Region: Lipase; cl14883 281090004482 nucleophilic elbow; other site 281090004483 catalytic triad; other site 281090004484 GlcN6P_deaminase: Glucosamine-6-phosphate (GlcN6P) deaminase subfamily; GlcN6P deaminase catalyzes the reversible conversion of GlcN6P to D-fructose-6-phosphate (Fru6P) and ammonium. The reaction is an aldo-keto isomerization coupled with an amination or...; Region: GlcN6P_deaminase; cd01399 281090004485 active site 281090004486 trimer interface [polypeptide binding]; other site 281090004487 allosteric site; other site 281090004488 active site lid [active] 281090004489 hexamer (dimer of trimers) interface [polypeptide binding]; other site 281090004490 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 281090004491 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 281090004492 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 281090004493 Coenzyme A binding pocket [chemical binding]; other site 281090004494 The DNA repair protein O6-alkylguanine-DNA alkyltransferase (ATase; also known as AGT, AGAT and MGMT) reverses O6-alkylation DNA damage by transferring O6-alkyl adducts to an active site cysteine irreversibly, without inducing DNA strand breaks. ATases...; Region: ATase; cd06445 281090004495 DNA binding site [nucleotide binding] 281090004496 active site 281090004497 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 281090004498 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 281090004499 active site 281090004500 phosphorylation site [posttranslational modification] 281090004501 intermolecular recognition site; other site 281090004502 dimerization interface [polypeptide binding]; other site 281090004503 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 281090004504 DNA binding residues [nucleotide binding] 281090004505 dimerization interface [polypeptide binding]; other site 281090004506 DoxX; Region: DoxX; cl00976 281090004507 Vitamin K-dependent gamma-carboxylase; Region: VKG_Carbox; cl02773 281090004508 Vitamin K-dependent gamma-carboxylase; Region: VKG_Carbox; cl02773 281090004509 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 281090004510 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 281090004511 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 281090004512 Walker A/P-loop; other site 281090004513 ATP binding site [chemical binding]; other site 281090004514 Q-loop/lid; other site 281090004515 ABC transporter signature motif; other site 281090004516 Walker B; other site 281090004517 D-loop; other site 281090004518 H-loop/switch region; other site 281090004519 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 281090004520 Amidinotransferase; Region: Amidinotransf; cl12043 281090004521 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 281090004522 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 281090004523 purine monophosphate binding site [chemical binding]; other site 281090004524 dimer interface [polypeptide binding]; other site 281090004525 putative catalytic residues [active] 281090004526 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 281090004527 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 281090004528 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 281090004529 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 281090004530 active site 281090004531 substrate binding site [chemical binding]; other site 281090004532 cosubstrate binding site; other site 281090004533 catalytic site [active] 281090004534 Uncharacterized conserved protein [Function unknown]; Region: COG2966 281090004535 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 281090004536 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 281090004537 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 281090004538 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090004539 CoA-ligase; Region: Ligase_CoA; cl02894 281090004540 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 281090004541 ATP-grasp domain; Region: ATP-grasp_4; cl03087 281090004542 CoA-ligase; Region: Ligase_CoA; cl02894 281090004543 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; cl01472 281090004544 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 281090004545 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 281090004546 Family description; Region: UvrD_C_2; cl15862 281090004547 Family description; Region: UvrD_C_2; cl15862 281090004548 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 281090004549 active site 281090004550 catalytic site [active] 281090004551 BAX inhibitor (BI)-1/YccA-like protein family; Region: BI-1-like; cl00473 281090004552 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 281090004553 GMP synthase; Reviewed; Region: guaA; PRK00074 281090004554 AMP/PPi binding site [chemical binding]; other site 281090004555 candidate oxyanion hole; other site 281090004556 catalytic triad [active] 281090004557 potential glutamine specificity residues [chemical binding]; other site 281090004558 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 281090004559 ATP Binding subdomain [chemical binding]; other site 281090004560 Ligand Binding sites [chemical binding]; other site 281090004561 Dimerization subdomain; other site 281090004562 Domain of unknown function (DUF3817); Region: DUF3817; cl14844 281090004563 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; cl01321 281090004564 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 281090004565 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 281090004566 Putative regulatory, ligand-binding protein related to C-terminal domains of K+ channels [Inorganic ion transport and metabolism]; Region: COG0490 281090004567 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 281090004568 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK08649 281090004569 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 281090004570 phosphate binding site [ion binding]; other site 281090004571 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 281090004572 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 281090004573 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 281090004574 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 281090004575 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 281090004576 active site 281090004577 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 281090004578 oligomerisation interface [polypeptide binding]; other site 281090004579 mobile loop; other site 281090004580 roof hairpin; other site 281090004581 UGMP family protein; Validated; Region: PRK09604 281090004582 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 281090004583 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 281090004584 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 281090004585 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 281090004586 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 281090004587 alanine racemase; Reviewed; Region: alr; PRK00053 281090004588 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 281090004589 active site 281090004590 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 281090004591 dimer interface [polypeptide binding]; other site 281090004592 substrate binding site [chemical binding]; other site 281090004593 catalytic residues [active] 281090004594 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 281090004595 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 281090004596 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 281090004597 glutaminase active site [active] 281090004598 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 281090004599 dimer interface [polypeptide binding]; other site 281090004600 active site 281090004601 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 281090004602 dimer interface [polypeptide binding]; other site 281090004603 active site 281090004604 pantothenate kinase; Provisional; Region: PRK05439 281090004605 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 281090004606 ATP-binding site [chemical binding]; other site 281090004607 CoA-binding site [chemical binding]; other site 281090004608 Mg2+-binding site [ion binding]; other site 281090004609 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 281090004610 non-specific DNA binding site [nucleotide binding]; other site 281090004611 salt bridge; other site 281090004612 sequence-specific DNA binding site [nucleotide binding]; other site 281090004613 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 281090004614 non-specific DNA binding site [nucleotide binding]; other site 281090004615 salt bridge; other site 281090004616 sequence-specific DNA binding site [nucleotide binding]; other site 281090004617 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14318 281090004618 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 281090004619 active site 281090004620 substrate binding site [chemical binding]; other site 281090004621 metal binding site [ion binding]; metal-binding site 281090004622 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 281090004623 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 281090004624 23S rRNA interface [nucleotide binding]; other site 281090004625 L3 interface [polypeptide binding]; other site 281090004626 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 281090004627 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 281090004628 dimerization interface 3.5A [polypeptide binding]; other site 281090004629 active site 281090004630 OpgC protein; Region: OpgC_C; cl00792 281090004631 OpgC protein; Region: OpgC_C; cl00792 281090004632 yrhL-like subfamily of SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase_yrhL_like; cd01840 281090004633 catalytic triad [active] 281090004634 catalytic triad [active] 281090004635 oxyanion hole [active] 281090004636 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 281090004637 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 281090004638 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 281090004639 alphaNTD homodimer interface [polypeptide binding]; other site 281090004640 alphaNTD - beta interaction site [polypeptide binding]; other site 281090004641 alphaNTD - beta' interaction site [polypeptide binding]; other site 281090004642 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 281090004643 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 281090004644 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 281090004645 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 281090004646 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 281090004647 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 281090004648 rRNA binding site [nucleotide binding]; other site 281090004649 predicted 30S ribosome binding site; other site 281090004650 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 281090004651 active site 281090004652 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 281090004653 adenylate kinase; Reviewed; Region: adk; PRK00279 281090004654 AMP-binding site [chemical binding]; other site 281090004655 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 281090004656 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 281090004657 SecY translocase; Region: SecY; pfam00344 281090004658 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 281090004659 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 281090004660 23S rRNA binding site [nucleotide binding]; other site 281090004661 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 281090004662 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 281090004663 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 281090004664 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 281090004665 5S rRNA interface [nucleotide binding]; other site 281090004666 L27 interface [polypeptide binding]; other site 281090004667 23S rRNA interface [nucleotide binding]; other site 281090004668 L5 interface [polypeptide binding]; other site 281090004669 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 281090004670 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 281090004671 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 281090004672 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 281090004673 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 281090004674 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 281090004675 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 281090004676 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 281090004677 KOW motif; Region: KOW; cl00354 281090004678 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 281090004679 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 281090004680 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 281090004681 23S rRNA interface [nucleotide binding]; other site 281090004682 putative translocon interaction site; other site 281090004683 signal recognition particle (SRP54) interaction site; other site 281090004684 L23 interface [polypeptide binding]; other site 281090004685 trigger factor interaction site; other site 281090004686 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 281090004687 23S rRNA interface [nucleotide binding]; other site 281090004688 5S rRNA interface [nucleotide binding]; other site 281090004689 putative antibiotic binding site [chemical binding]; other site 281090004690 L25 interface [polypeptide binding]; other site 281090004691 L27 interface [polypeptide binding]; other site 281090004692 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 281090004693 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 281090004694 G-X-X-G motif; other site 281090004695 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 281090004696 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 281090004697 protein-rRNA interface [nucleotide binding]; other site 281090004698 putative translocon binding site; other site 281090004699 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 281090004700 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 281090004701 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 281090004702 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 281090004703 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 281090004704 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 281090004705 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 281090004706 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 281090004707 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 281090004708 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 281090004709 active site 281090004710 elongation factor Tu; Reviewed; Region: PRK00049 281090004711 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 281090004712 G1 box; other site 281090004713 GEF interaction site [polypeptide binding]; other site 281090004714 GTP/Mg2+ binding site [chemical binding]; other site 281090004715 Switch I region; other site 281090004716 G2 box; other site 281090004717 G3 box; other site 281090004718 Switch II region; other site 281090004719 G4 box; other site 281090004720 G5 box; other site 281090004721 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 281090004722 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 281090004723 Antibiotic Binding Site [chemical binding]; other site 281090004724 elongation factor G; Reviewed; Region: PRK00007 281090004725 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 281090004726 G1 box; other site 281090004727 putative GEF interaction site [polypeptide binding]; other site 281090004728 GTP/Mg2+ binding site [chemical binding]; other site 281090004729 Switch I region; other site 281090004730 G2 box; other site 281090004731 G3 box; other site 281090004732 Switch II region; other site 281090004733 G4 box; other site 281090004734 G5 box; other site 281090004735 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 281090004736 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 281090004737 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 281090004738 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 281090004739 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 281090004740 S17 interaction site [polypeptide binding]; other site 281090004741 S8 interaction site; other site 281090004742 16S rRNA interaction site [nucleotide binding]; other site 281090004743 streptomycin interaction site [chemical binding]; other site 281090004744 23S rRNA interaction site [nucleotide binding]; other site 281090004745 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 281090004746 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 281090004747 ABC-ATPase subunit interface; other site 281090004748 dimer interface [polypeptide binding]; other site 281090004749 putative PBP binding regions; other site 281090004750 putative ABC transporter-associated repeat protein; Region: anch_rpt_wall; TIGR03773 281090004751 actinobacterial surface-anchored protein domain; Region: P_ac_wall_RPT; TIGR03769 281090004752 putative ABC transporter-associated repeat protein; Region: anch_rpt_wall; TIGR03773 281090004753 actinobacterial surface-anchored protein domain; Region: P_ac_wall_RPT; TIGR03769 281090004754 actinobacterial surface-anchored protein domain; Region: P_ac_wall_RPT; TIGR03769 281090004755 actinobacterial surface-anchored protein domain; Region: P_ac_wall_RPT; TIGR03769 281090004756 actinobacterial surface-anchored protein domain; Region: P_ac_wall_RPT; TIGR03769 281090004757 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 281090004758 Helix-turn-helix domains; Region: HTH; cl00088 281090004759 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 281090004760 Integrase core domain; Region: rve; cl01316 281090004761 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 281090004762 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 281090004763 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 281090004764 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 281090004765 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 281090004766 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 281090004767 Rpb1 (beta') - Rpb6 (omega) interaction site [polypeptide binding]; other site 281090004768 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 281090004769 G-loop; other site 281090004770 DNA binding site [nucleotide binding] 281090004771 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 281090004772 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 281090004773 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 281090004774 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 281090004775 RPB10 interaction site [polypeptide binding]; other site 281090004776 RPB1 interaction site [polypeptide binding]; other site 281090004777 RPB11 interaction site [polypeptide binding]; other site 281090004778 RPB3 interaction site [polypeptide binding]; other site 281090004779 RPB12 interaction site [polypeptide binding]; other site 281090004780 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 281090004781 Protein of unknown function (DUF1470); Region: DUF1470; pfam07336 281090004782 CGNR zinc finger; Region: zf-CGNR; pfam11706 281090004783 SprT homologues; Region: SprT; cl01182 281090004784 Protein of unknown function (DUF1684); Region: DUF1684; cl01327 281090004785 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 281090004786 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 281090004787 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 281090004788 DEAD-like helicases superfamily; Region: DEXDc; smart00487 281090004789 ATP binding site [chemical binding]; other site 281090004790 putative Mg++ binding site [ion binding]; other site 281090004791 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 281090004792 nucleotide binding region [chemical binding]; other site 281090004793 ATP-binding site [chemical binding]; other site 281090004794 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 281090004795 nudix motif; other site 281090004796 Predicted esterase [General function prediction only]; Region: COG0400 281090004797 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 281090004798 N-terminal domain of the actinomycetal Nei2 and related DNA glycosylases; Region: AcNei2_N; cd08971 281090004799 putative DNA binding site [nucleotide binding]; other site 281090004800 catalytic residue [active] 281090004801 putative H2TH interface [polypeptide binding]; other site 281090004802 putative catalytic residues [active] 281090004803 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 281090004804 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 281090004805 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 281090004806 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 281090004807 Transmembrane domain of unknown function (DUF3566); Region: DUF3566; pfam12089 281090004808 tetracycline repressor protein TetR; Provisional; Region: PRK13756 281090004809 Helix-turn-helix domains; Region: HTH; cl00088 281090004810 ECF-type riboflavin transporter, S component; Region: ECF-ribofla_trS; cl01942 281090004811 AMP-binding enzyme; Region: AMP-binding; cl15778 281090004812 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 281090004813 acetyl-CoA acetyltransferase; Provisional; Region: PRK06690 281090004814 dimer interface [polypeptide binding]; other site 281090004815 active site 281090004816 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 281090004817 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 281090004818 Walker A/P-loop; other site 281090004819 ATP binding site [chemical binding]; other site 281090004820 Q-loop/lid; other site 281090004821 ABC transporter signature motif; other site 281090004822 Walker B; other site 281090004823 D-loop; other site 281090004824 H-loop/switch region; other site 281090004825 Cobalt transport protein; Region: CbiQ; cl00463 281090004826 Zinc finger domain containing protein (CHY type) [Function unknown]; Region: COG4357 281090004827 CHY zinc finger; Region: zf-CHY; pfam05495 281090004828 Protein of unknown function (DUF805); Region: DUF805; cl01224 281090004829 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 281090004830 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 281090004831 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 281090004832 FeoA domain; Region: FeoA; cl00838 281090004833 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 281090004834 ferrous iron transporter FeoB; Region: feoB; TIGR00437 281090004835 G1 box; other site 281090004836 GTP/Mg2+ binding site [chemical binding]; other site 281090004837 Switch I region; other site 281090004838 G2 box; other site 281090004839 G3 box; other site 281090004840 Switch II region; other site 281090004841 G4 box; other site 281090004842 G5 box; other site 281090004843 Nucleoside recognition; Region: Gate; cl00486 281090004844 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 281090004845 Nucleoside recognition; Region: Gate; cl00486 281090004846 NifU-like domain; Region: NifU; cl00484 281090004847 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 281090004848 Protein of unknown function (DUF461); Region: DUF461; cl01071 281090004849 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 281090004850 catalytic residues [active] 281090004851 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 281090004852 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 281090004853 DNA binding residues [nucleotide binding] 281090004854 dimerization interface [polypeptide binding]; other site 281090004855 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 281090004856 N-acetyl-glucosamine transferase is involved in the synthesis of Poly-beta-1,6-N-acetyl-D-glucosamine; Region: GlcNAc-1-P_transferase; cd06436 281090004857 DXD motif; other site 281090004858 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 281090004859 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 281090004860 active site 281090004861 UDP-N-acetylglucosamine 2-epimerase; Region: Epimerase_2; pfam02350 281090004862 homodimer interface [polypeptide binding]; other site 281090004863 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 281090004864 Catalytic site [active] 281090004865 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 281090004866 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 281090004867 DNA binding residues [nucleotide binding] 281090004868 dimerization interface [polypeptide binding]; other site 281090004869 Helix-turn-helix domains; Region: HTH; cl00088 281090004870 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 281090004871 Integrase core domain; Region: rve; cl01316 281090004872 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 281090004873 MgtC family; Region: MgtC; pfam02308 281090004874 magnesium-transporting ATPase; Provisional; Region: PRK15122 281090004875 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; cl02930 281090004876 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 281090004877 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 281090004878 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 281090004879 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 281090004880 Predicted ATPase [General function prediction only]; Region: COG3899 281090004881 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 281090004882 DNA binding residues [nucleotide binding] 281090004883 dimerization interface [polypeptide binding]; other site 281090004884 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 281090004885 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 281090004886 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 281090004887 DNA binding residues [nucleotide binding] 281090004888 dimerization interface [polypeptide binding]; other site 281090004889 Glycosyl hydrolase family 43; Region: GH43_6; cd08985 281090004890 active site 281090004891 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 281090004892 Catalytic site [active] 281090004893 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 281090004894 active site 281090004895 oxyanion hole [active] 281090004896 catalytic triad [active] 281090004897 DNA repair protein RadA; Provisional; Region: PRK11823 281090004898 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 281090004899 Walker A motif; other site 281090004900 ATP binding site [chemical binding]; other site 281090004901 Walker B motif; other site 281090004902 amino-acid N-acetyltransferase; Region: N-Ac-Glu-synth; TIGR01890 281090004903 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 281090004904 Coenzyme A binding pocket [chemical binding]; other site 281090004905 Clp protease ATP binding subunit; Region: clpC; CHL00095 281090004906 Clp amino terminal domain; Region: Clp_N; pfam02861 281090004907 Clp amino terminal domain; Region: Clp_N; pfam02861 281090004908 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 281090004909 Walker A motif; other site 281090004910 ATP binding site [chemical binding]; other site 281090004911 Walker B motif; other site 281090004912 arginine finger; other site 281090004913 UvrB/uvrC motif; Region: UVR; pfam02151 281090004914 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 281090004915 Walker A motif; other site 281090004916 ATP binding site [chemical binding]; other site 281090004917 Walker B motif; other site 281090004918 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 281090004919 Phospholipase_D-nuclease N-terminal; Region: PLDc_N; pfam13396 281090004920 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 281090004921 Catalytic domain, repeat 1, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_1; cd09152 281090004922 putative active site [active] 281090004923 catalytic site [active] 281090004924 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase and similar proteins; Region: PLDc_EcCLS_like_2; cd09158 281090004925 putative active site [active] 281090004926 catalytic site [active] 281090004927 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; cl09173 281090004928 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 281090004929 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 281090004930 dimer interface [polypeptide binding]; other site 281090004931 putative anticodon binding site; other site 281090004932 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 281090004933 motif 1; other site 281090004934 dimer interface [polypeptide binding]; other site 281090004935 active site 281090004936 motif 2; other site 281090004937 motif 3; other site 281090004938 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 281090004939 pantoate--beta-alanine ligase; Region: panC; TIGR00018 281090004940 active site 281090004941 nucleotide binding site [chemical binding]; other site 281090004942 HIGH motif; other site 281090004943 KMSKS motif; other site 281090004944 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090004945 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 281090004946 Predicted membrane protein [Function unknown]; Region: COG3428 281090004947 Bacterial PH domain; Region: DUF304; cl01348 281090004948 Bacterial PH domain; Region: DUF304; cl01348 281090004949 Bacterial PH domain; Region: DUF304; cl01348 281090004950 Bacterial PH domain; Region: DUF304; cl01348 281090004951 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 281090004952 catalytic center binding site [active] 281090004953 ATP binding site [chemical binding]; other site 281090004954 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 281090004955 homooctamer interface [polypeptide binding]; other site 281090004956 active site 281090004957 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 281090004958 dihydropteroate synthase; Region: DHPS; TIGR01496 281090004959 substrate binding pocket [chemical binding]; other site 281090004960 dimer interface [polypeptide binding]; other site 281090004961 inhibitor binding site; inhibition site 281090004962 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 281090004963 GTP cyclohydrolase I; Provisional; Region: PLN03044 281090004964 active site 281090004965 FtsH Extracellular; Region: FtsH_ext; pfam06480 281090004966 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 281090004967 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 281090004968 Walker A motif; other site 281090004969 ATP binding site [chemical binding]; other site 281090004970 Walker B motif; other site 281090004971 arginine finger; other site 281090004972 Peptidase family M41; Region: Peptidase_M41; pfam01434 281090004973 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 281090004974 active site 281090004975 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 281090004976 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 281090004977 dimer interface [polypeptide binding]; other site 281090004978 substrate binding site [chemical binding]; other site 281090004979 metal binding sites [ion binding]; metal-binding site 281090004980 NlpC/P60 family; Region: NLPC_P60; cl11438 281090004981 Peptidase family M23; Region: Peptidase_M23; pfam01551 281090004982 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 281090004983 DNA binding site [nucleotide binding] 281090004984 Int/Topo IB signature motif; other site 281090004985 active site 281090004986 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 281090004987 DNA binding site [nucleotide binding] 281090004988 active site 281090004989 Int/Topo IB signature motif; other site 281090004990 catalytic residues [active] 281090004991 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 281090004992 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 281090004993 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 281090004994 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 281090004995 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 281090004996 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 281090004997 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 281090004998 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 281090004999 Immunoglobulin domain; Region: Ig; cl11960 281090005000 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 281090005001 Catalytic site [active] 281090005002 Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell division and chromosome partitioning / Cytoskeleton]; Region: ATS1; COG5184 281090005003 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1_2; pfam13540 281090005004 Regulator of chromosome condensation (RCC1) repeat; Region: RCC1; pfam00415 281090005005 RNA polymerase sigma-70 factor, TIGR02952 family; Region: Sig70_famx2 281090005006 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 281090005007 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 281090005008 Predicted ATPase [General function prediction only]; Region: COG3903 281090005009 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 281090005010 Helix-turn-helix domains; Region: HTH; cl00088 281090005011 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 281090005012 active site 281090005013 asparagine synthase (glutamine-hydrolyzing); Region: asn_synth_AEB; TIGR01536 281090005014 dimer interface [polypeptide binding]; other site 281090005015 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 281090005016 Ligand Binding Site [chemical binding]; other site 281090005017 Molecular Tunnel; other site 281090005018 Protein of unknown function (DUF419); Region: DUF419; cl15265 281090005019 Predicted oxidoreductases (related to aryl-alcohol dehydrogenases) [Energy production and conversion]; Region: Tas; COG0667 281090005020 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 281090005021 active site 281090005022 catalytic tetrad [active] 281090005023 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cl04270 281090005024 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 281090005025 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 281090005026 shikimate kinase; Provisional; Region: PRK13947 281090005027 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 281090005028 acyl-coenzyme A oxidase; Region: PLN02636 281090005029 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 281090005030 active site 281090005031 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 281090005032 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 281090005033 ATP binding site [chemical binding]; other site 281090005034 putative Mg++ binding site [ion binding]; other site 281090005035 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 281090005036 nucleotide binding region [chemical binding]; other site 281090005037 ATP-binding site [chemical binding]; other site 281090005038 RQC domain; Region: RQC; cl09632 281090005039 HRDC domain; Region: HRDC; cl02578 281090005040 L-asparagine permease; Provisional; Region: PRK15049 281090005041 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; cl01943 281090005042 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 281090005043 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 281090005044 Walker A/P-loop; other site 281090005045 ATP binding site [chemical binding]; other site 281090005046 Q-loop/lid; other site 281090005047 ABC transporter signature motif; other site 281090005048 Walker B; other site 281090005049 D-loop; other site 281090005050 H-loop/switch region; other site 281090005051 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC...; Region: ABC_cobalt_CbiO_domain1; cd03225 281090005052 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 281090005053 Walker A/P-loop; other site 281090005054 ATP binding site [chemical binding]; other site 281090005055 Q-loop/lid; other site 281090005056 ABC transporter signature motif; other site 281090005057 Walker B; other site 281090005058 D-loop; other site 281090005059 H-loop/switch region; other site 281090005060 Cobalt transport protein; Region: CbiQ; cl00463 281090005061 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 281090005062 Helix-turn-helix domains; Region: HTH; cl00088 281090005063 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 281090005064 transcriptional regulator MalT; Provisional; Region: PRK04841 281090005065 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 281090005066 DNA binding residues [nucleotide binding] 281090005067 dimerization interface [polypeptide binding]; other site 281090005068 The S24, S26 LexA/signal peptidase superfamily contains LexA-related and type I signal peptidase families. The S24 LexA protein domains include: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC 3.4.21.88), the...; Region: Peptidase_S24_S26; cd06462 281090005069 Catalytic site [active] 281090005070 Bacterial transcriptional repressor; Region: TetR_C_6; cl07106 281090005071 agmatine deiminase; Region: agmatine_aguA; TIGR03380 281090005072 Porphyromonas-type peptidyl-arginine deiminase; Region: PAD_porph; cl01113 281090005073 Amidase; Region: Amidase; cl11426 281090005074 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 281090005075 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 281090005076 Ligand Binding Site [chemical binding]; other site 281090005077 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 281090005078 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 281090005079 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 281090005080 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 281090005081 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 281090005082 ATP binding site [chemical binding]; other site 281090005083 Mg2+ binding site [ion binding]; other site 281090005084 G-X-G motif; other site 281090005085 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 281090005086 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 281090005087 active site 281090005088 phosphorylation site [posttranslational modification] 281090005089 intermolecular recognition site; other site 281090005090 dimerization interface [polypeptide binding]; other site 281090005091 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 281090005092 DNA binding site [nucleotide binding] 281090005093 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 281090005094 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 281090005095 Walker A/P-loop; other site 281090005096 ATP binding site [chemical binding]; other site 281090005097 Q-loop/lid; other site 281090005098 ABC transporter signature motif; other site 281090005099 Walker B; other site 281090005100 D-loop; other site 281090005101 H-loop/switch region; other site 281090005102 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 281090005103 FtsX-like permease family; Region: FtsX; cl15850 281090005104 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 281090005105 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 281090005106 catalytic residue [active] 281090005107 Alpha/beta hydrolase; Region: Abhydrolase_8; pfam06259 281090005108 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 281090005109 DEAD-like helicases superfamily; Region: DEXDc; smart00487 281090005110 ATP binding site [chemical binding]; other site 281090005111 Mg++ binding site [ion binding]; other site 281090005112 motif III; other site 281090005113 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 281090005114 nucleotide binding region [chemical binding]; other site 281090005115 ATP-binding site [chemical binding]; other site 281090005116 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 281090005117 Alpha/beta hydrolase; Region: Abhydrolase_8; pfam06259 281090005118 Helix-turn-helix domains; Region: HTH; cl00088 281090005119 Bacterial transcriptional regulator; Region: IclR; pfam01614 281090005120 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 281090005121 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 281090005122 active sites [active] 281090005123 tetramer interface [polypeptide binding]; other site 281090005124 Periplasmic binding domain of ABC-type YtfQ-like transport systems; Region: PBP1_YtfQ_like; cd06309 281090005125 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 281090005126 putative ligand binding site [chemical binding]; other site 281090005127 ABC-type sugar transport system, ATPase component [Carbohydrate transport and metabolism]; Region: MglA; COG1129 281090005128 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 hexoses...; Region: ABC_Carb_Monos_I; cd03216 281090005129 Walker A/P-loop; other site 281090005130 ATP binding site [chemical binding]; other site 281090005131 Q-loop/lid; other site 281090005132 ABC transporter signature motif; other site 281090005133 Walker B; other site 281090005134 D-loop; other site 281090005135 H-loop/switch region; other site 281090005136 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 281090005137 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 281090005138 TM-ABC transporter signature motif; other site 281090005139 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; cl02788 281090005140 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 281090005141 DNA-binding interface [nucleotide binding]; DNA binding site 281090005142 Transposase, Mutator family; Region: Transposase_mut; pfam00872 281090005143 Predicted nuclease of restriction endonuclease-like fold [General function prediction only]; Region: COG4804 281090005144 putative transposase OrfB; Reviewed; Region: PHA02517 281090005145 Transposase; Region: DEDD_Tnp_IS110; pfam01548 281090005146 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 281090005147 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 281090005148 DNA-binding site [nucleotide binding]; DNA binding site 281090005149 RNA-binding motif; other site 281090005150 Fatty acid desaturase; Region: FA_desaturase; pfam00487 281090005151 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 desaturases...; Region: Delta6-FADS-like; cd03506 281090005152 putative di-iron ligands [ion binding]; other site 281090005153 Transposase, Mutator family; Region: Transposase_mut; pfam00872 281090005154 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 281090005155 active site 281090005156 Helix-turn-helix domains; Region: HTH; cl00088 281090005157 Winged helix-turn helix; Region: HTH_29; pfam13551 281090005158 Helix-turn-helix domains; Region: HTH; cl00088 281090005159 Integrase core domain; Region: rve; cl01316 281090005160 Integrase core domain; Region: rve_3; cl15866 281090005161 EamA-like transporter family; Region: EamA; cl01037 281090005162 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 281090005163 Ligand Binding Site [chemical binding]; other site 281090005164 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 281090005165 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 281090005166 active site 281090005167 phosphorylation site [posttranslational modification] 281090005168 intermolecular recognition site; other site 281090005169 dimerization interface [polypeptide binding]; other site 281090005170 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 281090005171 DNA binding residues [nucleotide binding] 281090005172 dimerization interface [polypeptide binding]; other site 281090005173 Helix-turn-helix domains; Region: HTH; cl00088 281090005174 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 281090005175 Integrase core domain; Region: rve; cl01316 281090005176 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 281090005177 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 281090005178 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090005179 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 281090005180 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 281090005181 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; cl00566 281090005182 Transposase; Region: DEDD_Tnp_IS110; pfam01548 281090005183 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 281090005184 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 281090005185 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 281090005186 NAD(P) binding site [chemical binding]; other site 281090005187 catalytic residues [active] 281090005188 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 281090005189 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 281090005190 NAD binding site [chemical binding]; other site 281090005191 substrate binding site [chemical binding]; other site 281090005192 catalytic Zn binding site [ion binding]; other site 281090005193 tetramer interface [polypeptide binding]; other site 281090005194 structural Zn binding site [ion binding]; other site 281090005195 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 281090005196 L,D-transpeptidase catalytic domain; Region: YkuD; cl15405 281090005197 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 281090005198 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 281090005199 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 281090005200 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; cl15381 281090005201 Cellulose binding domain; Region: CBM_2; cl02709 281090005202 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 281090005203 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 281090005204 transposase; Provisional; Region: PRK06526 281090005205 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 281090005206 Walker A motif; other site 281090005207 ATP binding site [chemical binding]; other site 281090005208 Walker B motif; other site 281090005209 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 281090005210 putative dimer interface [polypeptide binding]; other site 281090005211 CH-type (Chalaropsis-type) lysozymes represent one of four functionally-defined classes of peptidoglycan hydrolases (also referred to as endo-N-acetylmuramidases) that cleave bacterial cell wall peptidoglycans. CH-type lysozymes exhibit both lysozyme; Region: GH25_CH-type; cd06412 281090005212 active site 281090005213 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 281090005214 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 281090005215 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090005216 Protein of unknown function (DUF3073); Region: DUF3073; pfam11273 281090005217 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 281090005218 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 281090005219 dimerization interface [polypeptide binding]; other site 281090005220 putative ATP binding site [chemical binding]; other site 281090005221 amidophosphoribosyltransferase; Provisional; Region: PRK07847 281090005222 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 281090005223 active site 281090005224 tetramer interface [polypeptide binding]; other site 281090005225 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 281090005226 active site 281090005227 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 281090005228 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 281090005229 ATP-grasp domain; Region: ATP-grasp_4; cl03087 281090005230 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 281090005231 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 281090005232 ATP binding site [chemical binding]; other site 281090005233 active site 281090005234 substrate binding site [chemical binding]; other site 281090005235 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 281090005236 Major Facilitator Superfamily; Region: MFS_1; pfam07690 281090005237 putative substrate translocation pore; other site 281090005238 Helix-turn-helix domains; Region: HTH; cl00088 281090005239 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 281090005240 catalytic residues [active] 281090005241 catalytic nucleophile [active] 281090005242 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 281090005243 Proteins of 100 residues with WXG; Region: WXG100; cl02005 281090005244 Predicted transcriptional regulator [Transcription]; Region: COG2345 281090005245 putative phosphonate catabolism associated alcohol dehydrogenase; Region: HpnZ_proposed; TIGR03366 281090005246 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090005247 NAD(P) binding site [chemical binding]; other site 281090005248 phosphonatase-like hydrolase; Region: PhnX-like; TIGR03351 281090005249 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 281090005250 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 281090005251 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 281090005252 putative active site [active] 281090005253 catalytic triad [active] 281090005254 Domain of unknown function (DUF3817); Region: DUF3817; cl14844 281090005255 Transcriptional regulators [Transcription]; Region: PurR; COG1609 281090005256 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 281090005257 DNA binding site [nucleotide binding] 281090005258 domain linker motif; other site 281090005259 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 281090005260 dimerization interface [polypeptide binding]; other site 281090005261 ligand binding site [chemical binding]; other site 281090005262 The substrate binding domain of a cellulose-binding protein from Thermotoga maritima contains the type 2 periplasmic binding fold; Region: PBP2_TmCBP_oligosaccharides_like; cd08509 281090005263 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 281090005264 substrate binding site [chemical binding]; other site 281090005265 D-ala-D-ala transporter subunit; Provisional; Region: PRK09881 281090005266 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 281090005267 dimer interface [polypeptide binding]; other site 281090005268 conserved gate region; other site 281090005269 putative PBP binding loops; other site 281090005270 ABC-ATPase subunit interface; other site 281090005271 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 281090005272 homotrimer interaction site [polypeptide binding]; other site 281090005273 putative active site [active] 281090005274 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 281090005275 Helix-turn-helix domains; Region: HTH; cl00088 281090005276 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 281090005277 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 281090005278 dimerization interface [polypeptide binding]; other site 281090005279 ATP binding site [chemical binding]; other site 281090005280 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 281090005281 dimerization interface [polypeptide binding]; other site 281090005282 ATP binding site [chemical binding]; other site 281090005283 EamA-like transporter family; Region: EamA; cl01037 281090005284 Transglycosylase; Region: Transgly; cl07896 281090005285 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 281090005286 putative luciferase-like monooxygenase, FMN-dependent, CE1758 family; Region: LLM_CE1758_fam; TIGR04036 281090005287 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 281090005288 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 281090005289 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 281090005290 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 281090005291 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 281090005292 DXD motif; other site 281090005293 Chorismate mutase type II; Region: CM_2; cl00693 281090005294 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 281090005295 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 281090005296 Walker A/P-loop; other site 281090005297 ATP binding site [chemical binding]; other site 281090005298 Q-loop/lid; other site 281090005299 ABC transporter signature motif; other site 281090005300 Walker B; other site 281090005301 D-loop; other site 281090005302 H-loop/switch region; other site 281090005303 hypothetical protein; Provisional; Region: PRK01346 281090005304 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 281090005305 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 281090005306 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 281090005307 GDP-binding site [chemical binding]; other site 281090005308 ACT binding site; other site 281090005309 IMP binding site; other site 281090005310 Helix-turn-helix domains; Region: HTH; cl00088 281090005311 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 281090005312 ABC-2 type transporter; Region: ABC2_membrane; cl11417 281090005313 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 281090005314 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 281090005315 active site 281090005316 metal binding site [ion binding]; metal-binding site 281090005317 hexamer interface [polypeptide binding]; other site 281090005318 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 281090005319 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 281090005320 UMP phosphatase; Provisional; Region: PRK10444 281090005321 active site 281090005322 motif I; other site 281090005323 motif II; other site 281090005324 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 281090005325 Septum formation; Region: Septum_form; pfam13845 281090005326 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 281090005327 active site 281090005328 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 281090005329 putative phosphate binding site [ion binding]; other site 281090005330 putative catalytic site [active] 281090005331 active site 281090005332 metal binding site A [ion binding]; metal-binding site 281090005333 DNA binding site [nucleotide binding] 281090005334 putative AP binding site [nucleotide binding]; other site 281090005335 putative metal binding site B [ion binding]; other site 281090005336 Rotavirus VP2 protein; Region: Rota_VP2; pfam05087 281090005337 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 281090005338 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 281090005339 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 281090005340 Protein of unknown function (DUF1237); Region: DUF1237; cl15402 281090005341 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090005342 active site 281090005343 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 281090005344 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 281090005345 Transcriptional regulators [Transcription]; Region: PurR; COG1609 281090005346 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 281090005347 DNA binding site [nucleotide binding] 281090005348 domain linker motif; other site 281090005349 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 281090005350 ligand binding site [chemical binding]; other site 281090005351 dimerization interface [polypeptide binding]; other site 281090005352 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 281090005353 dimer interface [polypeptide binding]; other site 281090005354 formaldehyde dehydrogenase (FDH)-like; Region: FDH_like_ADH3; cd08287 281090005355 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 281090005356 catalytic Zn binding site [ion binding]; other site 281090005357 NAD(P) binding site [chemical binding]; other site 281090005358 structural Zn binding site [ion binding]; other site 281090005359 Transcriptional regulators [Transcription]; Region: GntR; COG1802 281090005360 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 281090005361 DNA-binding site [nucleotide binding]; DNA binding site 281090005362 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 281090005363 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 281090005364 Walker A motif; other site 281090005365 ATP binding site [chemical binding]; other site 281090005366 Walker B motif; other site 281090005367 arginine finger; other site 281090005368 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 281090005369 Walker A motif; other site 281090005370 ATP binding site [chemical binding]; other site 281090005371 Walker B motif; other site 281090005372 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 281090005373 putative proline-specific permease; Provisional; Region: proY; PRK10580 281090005374 Spore germination protein; Region: Spore_permease; cl15802 281090005375 putative proline-specific permease; Provisional; Region: proY; PRK10580 281090005376 Copper resistance protein D; Region: CopD; cl00563 281090005377 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; cl09173 281090005378 Bacterial Ig-like domain; Region: Big_5; cl01012 281090005379 Reeler-like domain of YcnI and similar proteins; Region: YcnI_like; cd08545 281090005380 16S RNA G1207 methylase RsmC [Translation, ribosomal structure and biogenesis]; Region: RsmC; COG2813 281090005381 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 281090005382 S-adenosylmethionine binding site [chemical binding]; other site 281090005383 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 281090005384 Catalytic site [active] 281090005385 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 281090005386 DNA binding residues [nucleotide binding] 281090005387 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 281090005388 putative dimer interface [polypeptide binding]; other site 281090005389 enoyl-CoA hydratase; Provisional; Region: PRK08138 281090005390 chaperone protein DnaJ; Provisional; Region: PRK14279 281090005391 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 281090005392 HSP70 interaction site [polypeptide binding]; other site 281090005393 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 281090005394 substrate binding site [polypeptide binding]; other site 281090005395 dimer interface [polypeptide binding]; other site 281090005396 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 281090005397 dimer interface [polypeptide binding]; other site 281090005398 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 281090005399 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 281090005400 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 281090005401 synthetase active site [active] 281090005402 NTP binding site [chemical binding]; other site 281090005403 metal binding site [ion binding]; metal-binding site 281090005404 Isopentenyldiphosphate isomerase [Lipid metabolism]; Region: Idi; COG1443 281090005405 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 prenylated...; Region: IPP_Isomerase; cd02885 281090005406 active site 281090005407 metal binding site [ion binding]; metal-binding site 281090005408 nudix motif; other site 281090005409 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 281090005410 trimer interface [polypeptide binding]; other site 281090005411 active site 281090005412 Domain of unknown function (DUF955); Region: DUF955; cl01076 281090005413 BetR domain; Region: BetR; pfam08667 281090005414 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 281090005415 non-specific DNA binding site [nucleotide binding]; other site 281090005416 salt bridge; other site 281090005417 sequence-specific DNA binding site [nucleotide binding]; other site 281090005418 BRO family, N-terminal domain; Region: Bro-N; cl10591 281090005419 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 281090005420 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 281090005421 RecT family; Region: RecT; cl04285 281090005422 Endodeoxyribonuclease RusA; Region: RusA; cl01885 281090005423 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 281090005424 Phage portal protein; Region: Phage_portal; pfam04860 281090005425 Phage-related protein [Function unknown]; Region: COG4695; cl01923 281090005426 Caudovirus prohead protease; Region: Peptidase_U35; cl01521 281090005427 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 281090005428 Phage capsid family; Region: Phage_capsid; pfam05065 281090005429 Head-Tail Connector Protein gp6 of Bacteriophage HK97 and similar proteins; Region: gp6; cd08054 281090005430 phage conserved hypothetical protein, phiE125 gp8 family; Region: phage_chp_gp8; TIGR02215 281090005431 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 281090005432 Phage tail protein; Region: Sipho_tail; pfam05709 281090005433 Endo-N-acetylmuramidases (muramidases) are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis of 1,4-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues; Region: GH25_muramidase; cd00599 281090005434 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 281090005435 active site 281090005436 P63C domain; Region: P63C; pfam10546 281090005437 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 281090005438 metal binding triad [ion binding]; metal-binding site 281090005439 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 281090005440 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 281090005441 DNA-binding site [nucleotide binding]; DNA binding site 281090005442 UTRA domain; Region: UTRA; cl01230 281090005443 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 281090005444 DNA binding site [nucleotide binding] 281090005445 Int/Topo IB signature motif; other site 281090005446 active site 281090005447 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 281090005448 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 281090005449 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090005450 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 281090005451 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 281090005452 catalytic residue [active] 281090005453 Protein of unknown function (DUF2599); Region: DUF2599; pfam10783 281090005454 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 281090005455 DNA-binding site [nucleotide binding]; DNA binding site 281090005456 RNA-binding motif; other site 281090005457 Cation efflux family; Region: Cation_efflux; cl00316 281090005458 Putative ATP-dependant zinc protease; Region: Zn_protease; cl01682 281090005459 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 281090005460 META domain; Region: META; cl01245 281090005461 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 281090005462 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 281090005463 nudix motif; other site 281090005464 arginine/ornithine antiporter; Region: arg_ornith_anti; TIGR03810 281090005465 Helix-turn-helix domains; Region: HTH; cl00088 281090005466 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 281090005467 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 281090005468 dimerization interface [polypeptide binding]; other site 281090005469 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090005470 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 281090005471 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 281090005472 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 281090005473 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 281090005474 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 281090005475 Recombinase; Region: Recombinase; pfam07508 281090005476 Recombinase zinc beta ribbon domain; Region: Zn_ribbon_recom; pfam13408 281090005477 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; cl02788 281090005478 catalytic residues [active] 281090005479 Domain of unknown function (DUF4383); Region: DUF4383; pfam14325 281090005480 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 281090005481 heme binding pocket [chemical binding]; other site 281090005482 heme ligand [chemical binding]; other site 281090005483 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; cl00062 281090005484 phosphopeptide binding site; other site 281090005485 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 281090005486 ATP binding site [chemical binding]; other site 281090005487 type VI secretion system FHA domain protein; Region: VI_FHA; TIGR03354 281090005488 Copper resistance protein D; Region: CopD; cl00563 281090005489 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; cl09173 281090005490 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 281090005491 IHF dimer interface [polypeptide binding]; other site 281090005492 IHF - DNA interface [nucleotide binding]; other site 281090005493 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 281090005494 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 281090005495 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 281090005496 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 281090005497 metal binding site 2 [ion binding]; metal-binding site 281090005498 putative DNA binding helix; other site 281090005499 metal binding site 1 [ion binding]; metal-binding site 281090005500 dimer interface [polypeptide binding]; other site 281090005501 structural Zn2+ binding site [ion binding]; other site 281090005502 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 281090005503 putative PBP binding regions; other site 281090005504 ABC-ATPase subunit interface; other site 281090005505 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 281090005506 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 281090005507 Walker A/P-loop; other site 281090005508 ATP binding site [chemical binding]; other site 281090005509 Q-loop/lid; other site 281090005510 ABC transporter signature motif; other site 281090005511 Walker B; other site 281090005512 D-loop; other site 281090005513 H-loop/switch region; other site 281090005514 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 281090005515 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 281090005516 intersubunit interface [polypeptide binding]; other site 281090005517 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 281090005518 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 281090005519 E3 interaction surface; other site 281090005520 lipoyl attachment site [posttranslational modification]; other site 281090005521 e3 binding domain; Region: E3_binding; pfam02817 281090005522 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 281090005523 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 281090005524 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 281090005525 alpha subunit interface [polypeptide binding]; other site 281090005526 TPP binding site [chemical binding]; other site 281090005527 heterodimer interface [polypeptide binding]; other site 281090005528 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 281090005529 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_x; TIGR03181 281090005530 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 281090005531 TPP-binding site [chemical binding]; other site 281090005532 tetramer interface [polypeptide binding]; other site 281090005533 heterodimer interface [polypeptide binding]; other site 281090005534 phosphorylation loop region [posttranslational modification] 281090005535 histidinol-phosphate aminotransferase; Region: hisC; TIGR01141 281090005536 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 281090005537 pyridoxal 5'-phosphate binding site [chemical binding]; other site 281090005538 homodimer interface [polypeptide binding]; other site 281090005539 catalytic residue [active] 281090005540 Membrane protein of unknown function; Region: DUF360; cl00850 281090005541 adenylosuccinate lyase; Provisional; Region: PRK09285 281090005542 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 281090005543 tetramer interface [polypeptide binding]; other site 281090005544 active site 281090005545 Transcriptional regulators [Transcription]; Region: GntR; COG1802 281090005546 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 281090005547 DNA-binding site [nucleotide binding]; DNA binding site 281090005548 replicative DNA helicase; Region: DnaB; TIGR00665 281090005549 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 281090005550 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 281090005551 Walker A motif; other site 281090005552 ATP binding site [chemical binding]; other site 281090005553 Walker B motif; other site 281090005554 DNA binding loops [nucleotide binding] 281090005555 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 281090005556 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 281090005557 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 281090005558 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 281090005559 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 281090005560 dimer interface [polypeptide binding]; other site 281090005561 ssDNA binding site [nucleotide binding]; other site 281090005562 tetramer (dimer of dimers) interface [polypeptide binding]; other site 281090005563 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 281090005564 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 281090005565 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 281090005566 active site 281090005567 NTP binding site [chemical binding]; other site 281090005568 metal binding triad [ion binding]; metal-binding site 281090005569 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 281090005570 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 281090005571 Zn2+ binding site [ion binding]; other site 281090005572 Mg2+ binding site [ion binding]; other site 281090005573 integral membrane protein MviN; Region: mviN; TIGR01695 281090005574 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 281090005575 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 281090005576 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 281090005577 catalytic residues [active] 281090005578 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 281090005579 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 281090005580 pyridoxal 5'-phosphate binding site [chemical binding]; other site 281090005581 homodimer interface [polypeptide binding]; other site 281090005582 catalytic residue [active] 281090005583 ParB-like partition proteins; Region: parB_part; TIGR00180 281090005584 ParB-like nuclease domain; Region: ParBc; cl02129 281090005585 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 281090005586 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 281090005587 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy); Region: AdoMet_MTases; cl15754 281090005588 K homology RNA-binding domain, type I. KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA. There are two different KH domains that...; Region: KH-I; cl00098 281090005589 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 281090005590 RxxxH motif; other site 281090005591 putative inner membrane protein translocase component YidC; Provisional; Region: PRK01315 281090005592 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 281090005593 Haemolytic domain; Region: Haemolytic; cl00506 281090005594 Ribosomal protein L34; Region: Ribosomal_L34; cl00370