-- dump date 20111121_011557 -- class Genbank::misc_feature -- table misc_feature_note -- id note 765874000001 chromosomal replication initiation protein; Provisional; Region: dnaA; PRK14086 765874000002 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 765874000003 Walker A motif; other site 765874000004 ATP binding site; other site 765874000005 Walker B motif; other site 765874000006 arginine finger; other site 765874000007 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 765874000008 DnaA box-binding interface; other site 765874000009 DNA polymerase III subunit beta; Validated; Region: PRK07761 765874000010 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the...; Region: beta_clamp; cd00140 765874000011 putative DNA binding surface; other site 765874000012 dimer interface; other site 765874000013 beta-clamp/clamp loader binding surface; other site 765874000014 beta-clamp/translesion DNA polymerase binding surface; other site 765874000015 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 765874000016 Walker A/P-loop; other site 765874000017 ATP binding site; other site 765874000018 Q-loop/lid; other site 765874000019 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 765874000020 ABC transporter signature motif; other site 765874000021 Walker B; other site 765874000022 D-loop; other site 765874000023 H-loop/switch region; other site 765874000024 Protein of unknown function (DUF721); Region: DUF721; cl02324 765874000025 DNA gyrase, B subunit; Region: gyrB; TIGR01059 765874000026 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 765874000027 ATP binding site; other site 765874000028 Mg2+ binding site; other site 765874000029 G-X-G motif; other site 765874000030 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 765874000031 anchoring element; other site 765874000032 dimer interface; other site 765874000033 ATP binding site; other site 765874000034 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of...; Region: TOPRIM_TopoIIA_GyrB; cd03366 765874000035 active site 765874000036 putative metal-binding site; other site 765874000037 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 765874000038 Peptidase dimerization domain; Region: M20_dimer; cl09126 765874000039 DNA gyrase subunit A; Validated; Region: PRK05560 765874000040 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in...; Region: TOP4c; cd00187 765874000041 CAP-like domain; other site 765874000042 active site 765874000043 primary dimer interface; other site 765874000044 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 765874000045 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 765874000046 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 765874000047 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 765874000048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 765874000049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 765874000050 Transmembrane domain of unknown function (DUF3566); Region: DUF3566; pfam12089 765874000051 D-allose transporter subunit; Provisional; Region: PRK09701 765874000052 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems; Region: PBP1_ABC_sugar_binding_like_4; cd06312 765874000053 putative ligand binding site; other site 765874000054 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 765874000055 TM-ABC transporter signature motif; other site 765874000056 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 765874000057 This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos). The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and...; Region: ABC_Carb_Monos_I; cd03216 765874000058 Walker A/P-loop; other site 765874000059 ATP binding site; other site 765874000060 Q-loop/lid; other site 765874000061 ABC transporter signature motif; other site 765874000062 Walker B; other site 765874000063 D-loop; other site 765874000064 H-loop/switch region; other site 765874000065 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 765874000066 active site 765874000067 Rhomboid family; Region: Rhomboid; cl11446 765874000068 CRISPR-associated protein Cas5, N-terminal domain; Region: CRISPR_cas5; cl12040 765874000069 Glycerophosphodiester phosphodiesterase-like domain of spider venom sphingomyelinases D, bacterial phospholipase D, and similar proteins; Region: GDPD_like_SMaseD_PLD; cd08576 765874000070 putative active site; other site 765874000071 catalytic site; other site 765874000072 Mg binding site; other site 765874000073 catalytic loop; other site 765874000074 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 765874000075 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 765874000076 Walker A/P-loop; other site 765874000077 ATP binding site; other site 765874000078 Q-loop/lid; other site 765874000079 ABC transporter signature motif; other site 765874000080 Walker B; other site 765874000081 D-loop; other site 765874000082 H-loop/switch region; other site 765874000083 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist...; Region: TM_ABC_iron-siderophores_like; cd06550 765874000084 ABC-ATPase subunit interface; other site 765874000085 dimer interface; other site 765874000086 putative PBP binding regions; other site 765874000087 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist...; Region: TM_ABC_iron-siderophores_like; cd06550 765874000088 ABC-ATPase subunit interface; other site 765874000089 dimer interface; other site 765874000090 putative PBP binding regions; other site 765874000091 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 765874000092 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor...; Region: FhuD; cd01146 765874000093 siderophore binding site; other site 765874000094 Uncharacterized protein family (UPF0233); Region: UPF0233; cl11506 765874000095 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 765874000096 Protein kinase; unclassified specificity; Region: STYKc; smart00221 765874000097 active site 765874000098 ATP binding site; other site 765874000099 substrate binding site; other site 765874000100 activation loop (A-loop); other site 765874000101 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2815 765874000102 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 765874000103 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 765874000104 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 765874000105 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 765874000106 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 765874000107 active site 765874000108 ATP binding site; other site 765874000109 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 765874000110 substrate binding site; other site 765874000111 activation loop (A-loop); other site 765874000112 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 765874000113 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 765874000114 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 765874000115 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 765874000116 active site 765874000117 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 765874000118 phosphopeptide binding site; other site 765874000119 Protein of unknown function (DUF2662); Region: DUF3662; pfam12401 765874000120 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 765874000121 phosphopeptide binding site; other site 765874000122 CAAX amino terminal protease family; Region: Abi; cl00558 765874000123 Protein of unknown function (DUF2812); Region: DUF2812; pfam11193 765874000124 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 765874000125 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 765874000126 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface...; Region: TroA-like; cl00262 765874000127 intersubunit interface; other site 765874000128 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 765874000129 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 765874000130 Walker A/P-loop; other site 765874000131 ATP binding site; other site 765874000132 Q-loop/lid; other site 765874000133 ABC transporter signature motif; other site 765874000134 Walker B; other site 765874000135 D-loop; other site 765874000136 H-loop/switch region; other site 765874000137 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist...; Region: TM_ABC_iron-siderophores_like; cd06550 765874000138 ABC-ATPase subunit interface; other site 765874000139 dimer interface; other site 765874000140 putative PBP binding regions; other site 765874000141 MgtE intracellular N domain; Region: MgtE_N; pfam03448 765874000142 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 765874000143 Divalent cation transporter; Region: MgtE; cl00786 765874000144 trehalose synthase; Region: treS_nterm; TIGR02456 765874000145 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 765874000146 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 765874000147 Major Facilitator Superfamily; Region: MFS_1; pfam07690 765874000148 putative substrate translocation pore; other site 765874000149 Anti-sigma-K factor rskA; Region: RskA; cl02208 765874000150 RNA polymerase sigma factor SigK; Reviewed; Region: PRK09646 765874000151 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 765874000152 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial...; Region: Sigma70_r4; cd06171 765874000153 DNA binding residues 765874000154 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 765874000155 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 765874000156 catalytic residues; other site 765874000157 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 765874000158 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 765874000159 dimer interface; other site 765874000160 conserved gate region; other site 765874000161 putative PBP binding loops; other site 765874000162 ABC-ATPase subunit interface; other site 765874000163 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 765874000164 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 765874000165 Walker A/P-loop; other site 765874000166 ATP binding site; other site 765874000167 Q-loop/lid; other site 765874000168 ABC transporter signature motif; other site 765874000169 Walker B; other site 765874000170 D-loop; other site 765874000171 H-loop/switch region; other site 765874000172 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 765874000173 Peptidase dimerization domain; Region: M20_dimer; cl09126 765874000174 biotin synthase; Validated; Region: PRK06256 765874000175 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 765874000176 FeS/SAM binding site; other site 765874000177 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 765874000178 MepB protein; Region: MepB; cl01985 765874000179 AMP nucleosidase; Provisional; Region: PRK08292 765874000180 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 765874000181 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 765874000182 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 765874000183 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 765874000184 active site 765874000185 Myo-inositol-1-phosphate synthase; Region: NAD_binding_5; pfam07994 765874000186 Myo-inositol-1-phosphate synthase; Region: Inos-1-P_synth; cl00554 765874000187 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 765874000188 Lipase (class 2); Region: Lipase_2; pfam01674 765874000189 NADPH_oxidase. Nitroreductase family containing NADH oxidase and other, uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: NADH_oxidase; cd03370 765874000190 dimer interface; other site 765874000191 FMN binding site; other site 765874000192 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 765874000193 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 765874000194 trimer interface; other site 765874000195 putative metal binding site; other site 765874000196 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 765874000197 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 765874000198 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 765874000199 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 765874000200 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4805 765874000201 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 765874000202 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 765874000203 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 765874000204 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 765874000205 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 765874000206 Sulfite exporter TauE/SafE; Region: TauE; cl00498 765874000207 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 765874000208 active site 765874000209 phosphorylation site 765874000210 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 765874000211 P-loop; other site 765874000212 active site 765874000213 phosphorylation site 765874000214 ascorbate-specific PTS system enzyme IIC; Reviewed; Region: PRK12997 765874000215 PTS system sugar-specific permease component; Region: EIIC-GAT; cl04451 765874000216 HrpA-like helicases [DNA replication, recombination, and repair]; Region: HrpA; COG1643 765874000217 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 765874000218 ATP binding site; other site 765874000219 putative Mg++ binding site; other site 765874000220 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 765874000221 nucleotide binding region; other site 765874000222 ATP-binding site; other site 765874000223 Helicase associated domain (HA2); Region: HA2; cl04503 765874000224 ATP-dependent helicase C-terminal; Region: HrpB_C; pfam08482 765874000225 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy; cl01206 765874000226 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 765874000227 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 765874000228 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 765874000229 Domain of unknown function (DUF74); Region: DUF74; cl00426 765874000230 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 765874000231 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 765874000232 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 765874000233 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 765874000234 DNA binding site 765874000235 active site 765874000236 Domain of unknown function DUF222; Region: DUF222; pfam02720 765874000237 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins...; Region: HNHc; cd00085 765874000238 active site 765874000239 glycerol kinase; Provisional; Region: glpK; PRK00047 765874000240 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; pfam00370 765874000241 FGGY family of carbohydrate kinases, C-terminal domain; Region: FGGY_C; pfam02782 765874000242 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-...; Region: MIP; cl00200 765874000243 amphipathic channel; other site 765874000244 Asn-Pro-Ala signature motifs; other site 765874000245 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 765874000246 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 765874000247 Peptidase family M13; Region: Peptidase_M13; pfam01431 765874000248 Membrane proteinase, regulator of anti-sigma factor [Posttranslational modification, protein turnover, chaperones]; Region: prsW; COG2339 765874000249 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 765874000250 Substrate binding domain of ABC-type glycine betaine transport system; Region: OpuAC; pfam04069 765874000251 Mycobacterial cell wall arabinan synthesis protein; Region: Arabinose_trans; pfam04602 765874000252 Arabinofuranosyltransferase N terminal; Region: AftA_N; pfam12250 765874000253 Arabinofuranosyltransferase A C terminal; Region: AftA_C; pfam12249 765874000254 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 765874000255 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 765874000256 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 765874000257 FAD binding domain; Region: FAD_binding_4; cl10516 765874000258 D-arabinono-1,4-lactone oxidase; Region: ALO; cl04370 765874000259 GtrA-like protein; Region: GtrA; cl00971 765874000260 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 765874000261 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 765874000262 active site 765874000263 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface...; Region: TroA-like; cl00262 765874000264 intersubunit interface; other site 765874000265 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 765874000266 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-...; Region: ABC_Metallic_Cations; cd03235 765874000267 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist...; Region: TM_ABC_iron-siderophores_like; cl00462 765874000268 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist...; Region: TM_ABC_iron-siderophores_like; cl00462 765874000269 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist...; Region: TM_ABC_iron-siderophores_like; cd06550 765874000270 ABC-ATPase subunit interface; other site 765874000271 dimer interface; other site 765874000272 putative PBP binding regions; other site 765874000273 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface...; Region: TroA-like; cl00262 765874000274 intersubunit interface; other site 765874000275 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 765874000276 active site 765874000277 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 765874000278 ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export. Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides...; Region: ABC_KpsT_Wzt; cd03220 765874000279 Walker A/P-loop; other site 765874000280 ATP binding site; other site 765874000281 Q-loop/lid; other site 765874000282 ABC transporter signature motif; other site 765874000283 Walker B; other site 765874000284 D-loop; other site 765874000285 H-loop/switch region; other site 765874000286 ABC-2 type transporter; Region: ABC2_membrane; cl11417 765874000287 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 765874000288 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 765874000289 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 765874000290 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 765874000291 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 765874000292 NAD(P) binding site; other site 765874000293 histidinol-phosphate aminotransferase; Validated; Region: PRK00950 765874000294 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 765874000295 pyridoxal 5'-phosphate binding site; other site 765874000296 homodimer interface; other site 765874000297 catalytic residue; other site 765874000298 Permease SLC13 (solute carrier 13). The sodium/dicarboxylate cotransporter NaDC-1 has been shown to translocate Krebs cycle intermediates such as succinate, citrate, and alpha-ketoglutarate across plasma membranes rabbit, human, and rat kidney. It is...; Region: SLC13_permease; cd01115 765874000299 transmembrane helices; other site 765874000300 CAT RNA binding domain; Region: CAT_RBD; pfam03123 765874000301 PRD domain; Region: PRD; pfam00874 765874000302 PRD domain; Region: PRD; pfam00874 765874000303 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 765874000304 PTS system, N-acetylglucosamine-specific IIBC component; Region: PTS-II-BC-nag; TIGR01998 765874000305 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIB_glc; cd00212 765874000306 active site turn 765874000307 phosphorylation site 765874000308 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_glc; cl00162 765874000309 HPr interaction site; other site 765874000310 glycerol kinase (GK) interaction site; other site 765874000311 active site 765874000312 phosphorylation site 765874000313 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 765874000314 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 765874000315 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily...; Region: Heme_Cu_Oxidase_I; cl00275 765874000316 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 765874000317 pyridoxal 5'-phosphate binding site; other site 765874000318 homodimer interface; other site 765874000319 catalytic residue; other site 765874000320 pyridoxal 5'-phosphate synthase, synthase subunit Pdx1; Region: TIGR00343 765874000321 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 765874000322 active site 765874000323 multimer interface; other site 765874000324 Glutamine Amidotransferase (GATase_I) involved in pyridoxine biosynthesis; Region: GATase1_PB; cd01749 765874000325 predicted active site; other site 765874000326 catalytic triad; other site 765874000327 prephenate dehydrogenase; Validated; Region: PRK06545 765874000328 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 765874000329 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 765874000330 nucleoside/Zn binding site; other site 765874000331 dimer interface; other site 765874000332 catalytic motif; other site 765874000333 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 765874000334 Queuine tRNA-ribosyltransferase; Region: TGT; cl00409 765874000335 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 765874000336 HIGH motif; other site 765874000337 active site 765874000338 nucleotide binding site; other site 765874000339 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 765874000340 KMSKS motif; other site 765874000341 active site 765874000342 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 765874000343 gluconate transporter; Region: gntP; TIGR00791 765874000344 Gluconate kinase [Carbohydrate transport and metabolism]; Region: GntK; COG3265 765874000345 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 765874000346 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 765874000347 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 765874000348 putative NAD(P) binding site; other site 765874000349 catalytic Zn binding site; other site 765874000350 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 765874000351 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 765874000352 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 765874000353 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 765874000354 pyridoxal 5'-phosphate binding site; other site 765874000355 homodimer interface; other site 765874000356 catalytic residue; other site 765874000357 Suppressor of fused protein (SUFU); Region: SUFU; pfam05076 765874000358 DNA polymerase III, subunit gamma and tau; Region: dnaX_nterm; TIGR02397 765874000359 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 765874000360 Walker A motif; other site 765874000361 ATP binding site; other site 765874000362 Walker B motif; other site 765874000363 arginine finger; other site 765874000364 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 765874000365 DNA polymerase III subunits gamma and tau; Validated; Region: PRK07764 765874000366 Uncharacterized BCR, YbaB family COG0718; Region: DUF149; cl00494 765874000367 recombination protein RecR; Reviewed; Region: recR; PRK00076 765874000368 RecR protein; Region: RecR; pfam02132 765874000369 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 765874000370 putative active site; other site 765874000371 putative metal-binding site; other site 765874000372 tetramer interface; other site 765874000373 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 765874000374 gluconate transporter; Region: gntP; TIGR00791 765874000375 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 765874000376 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 765874000377 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 765874000378 Protein of unknown function, DUF1537; Region: DUF1537; cl01345 765874000379 Transcriptional regulators [Transcription]; Region: FadR; COG2186 765874000380 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 765874000381 DNA binding site 765874000382 FCD domain; Region: FCD; cl11656 765874000383 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 765874000384 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 765874000385 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 765874000386 catalytic triad; other site 765874000387 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 765874000388 Domain of unknown function (DUF1727); Region: DUF1727; pfam08353 765874000389 DNA polymerase III subunit epsilon; Validated; Region: PRK05601 765874000390 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 765874000391 active site 765874000392 catalytic site; other site 765874000393 substrate binding site; other site 765874000394 potential frameshift: common BLAST hit: gi|38232888|ref|NP_938655.1| putative nitroreductase 765874000395 This family contains NADPH-dependent flavin reductase and oxygen-insensitive nitroreductase. These enzymes are homodimeric flavoproteins that contain one FMN per monomer as a cofactor. Flavin reductase catalyzes the reduction of flavin by using NADPH...; Region: NfsA_FRP; cd02146 765874000396 FMN binding site; other site 765874000397 NADPH bind site; other site 765874000398 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 765874000399 FMN binding site; other site 765874000400 2-isopropylmalate synthase; Validated; Region: PRK03739 765874000401 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 765874000402 active site 765874000403 catalytic residues; other site 765874000404 metal-binding site 765874000405 LeuA allosteric (dimerization) domain; Region: LeuA_dimer; pfam08502 765874000406 Transcriptional regulator, contains sigma factor-related N-terminal domain [Transcription]; Region: DeoR; COG2390 765874000407 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial...; Region: Sigma70_r4; cd06171 765874000408 DNA binding residues 765874000409 Putative sugar-binding domain; Region: Sugar-bind; pfam04198 765874000410 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 765874000411 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 765874000412 Major Facilitator Superfamily; Region: MFS_1; pfam07690 765874000413 putative substrate translocation pore; other site 765874000414 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family. DERA belongs to the class I aldolases and catalyzes a reversible aldol reaction between acetaldehyde and glyceraldehyde 3-phosphate to generate 2-deoxyribose 5-phosphate. DERA is unique in...; Region: DeoC; cd00959 765874000415 intersubunit interface; other site 765874000416 active site 765874000417 catalytic residue; other site 765874000418 phosphoglucomutase; Provisional; Region: PTZ00150 765874000419 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 deoxyribose-1-...; Region: PGM2; cd05799 765874000420 active site 765874000421 substrate binding site; other site 765874000422 metal-binding site 765874000423 Collagen-binding protein B domain, mediates bacterial adherence to collagen; the primary sequence has a non-repetitive, collagen-binding A region, followed by the repetitive B region; the B region has one to four 23 kDa repeat units (B1-B4). The B...; Region: CollagenBindB; cl14619 765874000424 Collagen-binding protein B domain, mediates bacterial adherence to collagen; the primary sequence has a non-repetitive, collagen-binding A region, followed by the repetitive B region; the B region has one to four 23 kDa repeat units (B1-B4). The B...; Region: CollagenBindB; cl14619 765874000425 Collagen-binding protein B domain, mediates bacterial adherence to collagen; the primary sequence has a non-repetitive, collagen-binding A region, followed by the repetitive B region; the B region has one to four 23 kDa repeat units (B1-B4). The B...; Region: CollagenBindB; cl14619 765874000426 aspartate kinase; Reviewed; Region: PRK06635 765874000427 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 765874000428 putative nucleotide binding site; other site 765874000429 putative catalytic residues; other site 765874000430 putative Mg ion binding site; other site 765874000431 putative aspartate binding site; other site 765874000432 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 765874000433 putative allosteric regulatory site; other site 765874000434 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 765874000435 putative allosteric regulatory residue; other site 765874000436 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 765874000437 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 765874000438 Semialdehyde dehydrogenase, dimerization domain; Region: Semialdhyde_dhC; pfam02774 765874000439 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 765874000440 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial...; Region: Sigma70_r4; cl01055 765874000441 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 765874000442 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 765874000443 heme binding pocket; other site 765874000444 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 765874000445 ABC Carbohydrate and Solute Transporters-like subgroup. This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family...; Region: ABC_Carb_Solutes_like; cd03259 765874000446 Walker A/P-loop; other site 765874000447 ATP binding site; other site 765874000448 Q-loop/lid; other site 765874000449 ABC transporter signature motif; other site 765874000450 Walker B; other site 765874000451 D-loop; other site 765874000452 H-loop/switch region; other site 765874000453 TOBE domain; Region: TOBE_2; cl01440 765874000454 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 765874000455 dimer interface; other site 765874000456 conserved gate region; other site 765874000457 ABC-ATPase subunit interface; other site 765874000458 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 765874000459 glycerol-3-phosphate transporter; Region: glpT; TIGR00712 765874000460 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 765874000461 putative substrate translocation pore; other site 765874000462 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 765874000463 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 765874000464 active site 765874000465 phosphorylation site 765874000466 intermolecular recognition site; other site 765874000467 dimerization interface; other site 765874000468 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase...; Region: trans_reg_C; cd00383 765874000469 DNA binding site 765874000470 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cl00080 765874000471 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 765874000472 ATP binding site; other site 765874000473 Mg2+ binding site; other site 765874000474 G-X-G motif; other site 765874000475 putative monovalent cation/H+ antiporter subunit F; Reviewed; Region: PRK12612 765874000476 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 765874000477 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK08375 765874000478 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 765874000479 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 765874000480 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12650 765874000481 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 765874000482 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 765874000483 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 765874000484 Predicted membrane protein [Function unknown]; Region: COG1511 765874000485 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 765874000486 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 765874000487 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 765874000488 Walker A/P-loop; other site 765874000489 ATP binding site; other site 765874000490 Q-loop/lid; other site 765874000491 ABC transporter signature motif; other site 765874000492 Walker B; other site 765874000493 D-loop; other site 765874000494 H-loop/switch region; other site 765874000495 potential frameshift: common BLAST hit: gi|172041606|ref|YP_001801320.1| transposase for insertion sequence 765874000496 Transposase, Mutator family; Region: Transposase_mut; pfam00872 765874000497 Transposase, Mutator family; Region: Transposase_mut; pfam00872 765874000498 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3328 765874000499 Predicted phosphohydrolases [General function prediction only]; Region: COG1408 765874000500 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 765874000501 putative active site; other site 765874000502 putative metal binding site; other site 765874000503 GatB domain; Region: GatB_Yqey; cl11497 765874000504 Transglycosylase; Region: Transgly; cl07896 765874000505 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 765874000506 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 765874000507 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 765874000508 Transcription factor WhiB; Region: Whib; pfam02467 765874000509 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 765874000510 homotrimer interaction site; other site 765874000511 putative active site; other site 765874000512 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 765874000513 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 765874000514 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 765874000515 ligand binding site; other site 765874000516 flexible hinge region; other site 765874000517 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 765874000518 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 765874000519 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 765874000520 minor groove reading motif; other site 765874000521 helix-hairpin-helix signature motif; other site 765874000522 substrate binding pocket; other site 765874000523 active site 765874000524 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing...; Region: TlpA_like_family; cd02966 765874000525 catalytic residues; other site 765874000526 Coenzyme A pyrophosphatase (CoAse), a member of the Nudix hydrolase superfamily, functions to catalyze the elimination of oxidized inactive CoA, which can inhibit CoA-utilizing enzymes. The need of CoAses mainly arises under conditions of oxidative...; Region: CoAse; cd03426 765874000527 putative active site; other site 765874000528 putative CoA binding site; other site 765874000529 nudix motif; other site 765874000530 metal-binding site 765874000531 Colicin V production protein; Region: Colicin_V; cl00567 765874000532 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic...; Region: Tryp_SPc; cl00149 765874000533 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 765874000534 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 765874000535 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 765874000536 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 765874000537 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 765874000538 motif II; other site 765874000539 helicase/secretion neighborhood CpaE-like protein; Region: CpaE_hom_Actino; TIGR03815 765874000540 helicase/secretion neighborhood ATPase; Region: heli_sec_ATPase; TIGR03819 765874000541 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial...; Region: VirB11-like_ATPase; cd01130 765874000542 ATP binding site; other site 765874000543 Walker A motif; other site 765874000544 hexamer interface; other site 765874000545 Walker B motif; other site 765874000546 Bacterial type II secretion system protein F domain; Region: GSPII_F; cl00906 765874000547 helicase/secretion neighborhood TadE-like protein; Region: tadE_like_DECH; TIGR03816 765874000548 helicase/secretion neighborhood putative DEAH-box helicase; Region: DECH_helic; TIGR03817 765874000549 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 765874000550 ATP binding site; other site 765874000551 putative Mg++ binding site; other site 765874000552 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 765874000553 nucleotide binding region; other site 765874000554 Domain of unknown function (DUF1998); Region: DUF1998; pfam09369 765874000555 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 765874000556 DNA binding site 765874000557 RNA-binding motif; other site 765874000558 DNA topoisomerase I; Validated; Region: PRK07941 765874000559 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in...; Region: TOPRIM_TopoIA_TopoI; cd03363 765874000560 active site 765874000561 interdomain interaction site; other site 765874000562 putative metal-binding site; other site 765874000563 nucleotide binding site; other site 765874000564 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded...; Region: TOP1Ac; cl11986 765874000565 domain I; other site 765874000566 phosphate binding site; other site 765874000567 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded...; Region: TOP1Ac; cd00186 765874000568 domain II; other site 765874000569 domain III; other site 765874000570 nucleotide binding site; other site 765874000571 DNA binding groove 765874000572 catalytic site; other site 765874000573 domain IV; other site 765874000574 Predicted membrane protein [Function unknown]; Region: COG1297; cl14607 765874000575 putative oligopeptide transporter, OPT family; Region: TIGR00733 765874000576 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cl01054 765874000577 cyclase homology domain; Region: CHD; cd07302 765874000578 nucleotidyl binding site; other site 765874000579 metal-binding site 765874000580 dimer interface; other site 765874000581 DNA polymerase III subunit delta'; Validated; Region: PRK07940 765874000582 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 765874000583 acyl-CoA synthetase; Validated; Region: PRK07788 765874000584 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 765874000585 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 765874000586 active site 765874000587 catalytic triad; other site 765874000588 oxyanion hole; other site 765874000589 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 765874000590 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 765874000591 substrate binding site; other site 765874000592 tetramer interface; other site 765874000593 Cupin domain; Region: Cupin_2; cl09118 765874000594 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 765874000595 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 765874000596 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 765874000597 Peptidase family M1; Region: Peptidase_M1; pfam01433 765874000598 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 765874000599 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 765874000600 Predicted esterase [General function prediction only]; Region: COG0627 765874000601 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK07818 765874000602 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 765874000603 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 765874000604 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 765874000605 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 765874000606 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 765874000607 non-specific DNA binding site; other site 765874000608 salt bridge; other site 765874000609 sequence-specific DNA binding site; other site 765874000610 Predicted transcriptional regulator [General function prediction only]; Region: COG3800 765874000611 Domain of unknown function (DUF955); Region: DUF955; cl01076 765874000612 Predicted transcriptional regulator (DUF2083); Region: DUF2083; pfam09856 765874000613 Succinate:quinone oxidoreductase (SQR)-like Type B subfamily 2, transmembrane subunit; composed of proteins with similarity to the SQRs of Geobacter metallireducens and Corynebacterium glutamicum. SQR catalyzes the oxidation of succinate to fumarate...; Region: SQR_TypeB_2_TM; cd03498 765874000614 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 765874000615 putative Iron-sulfur protein interface; other site 765874000616 proximal heme binding site; other site 765874000617 distal heme binding site; other site 765874000618 putative dimer interface; other site 765874000619 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 765874000620 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 765874000621 domain; Region: Succ_DH_flav_C; pfam02910 765874000622 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 765874000623 Predicted membrane protein [Function unknown]; Region: COG2733 765874000624 Protein of unknown function (DUF2516); Region: DUF2516; pfam10724 765874000625 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 765874000626 pyruvate formate-lyase 1-activating enzyme; Region: PFLA; TIGR02493 765874000627 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 765874000628 FeS/SAM binding site; other site 765874000629 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 765874000630 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 765874000631 formate acetyltransferase 1; Region: pyr_form_ly_1; TIGR01255 765874000632 Protein of unknown function (DUF2505); Region: DUF2505; pfam10698 765874000633 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK13903 765874000634 FAD binding domain; Region: FAD_binding_4; cl10516 765874000635 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 765874000636 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05605 765874000637 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 765874000638 This family is most closely related to the GT1 family of glycosyltransferases. The sucrose-phosphate synthases in this family may be unique to plants and photosynthetic bacteria. This enzyme catalyzes the synthesis of sucrose 6-phosphate from fructose...; Region: GT1_Sucrose_synthase; cd03800 765874000639 UDP-N-acetylglucosamine: 1L-myo-inositol-1-phosphate 1-alpha-D-N-acetylglucosaminyltransferase; Region: mycothiol_MshA; TIGR03449 765874000640 putative ADP-binding pocket; other site 765874000641 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 765874000642 catalytic core; other site 765874000643 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 765874000644 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 765874000645 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 765874000646 dimer interface; other site 765874000647 phosphorylation site 765874000648 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 765874000649 ATP binding site; other site 765874000650 Mg2+ binding site; other site 765874000651 G-X-G motif; other site 765874000652 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 765874000653 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 765874000654 active site 765874000655 phosphorylation site 765874000656 intermolecular recognition site; other site 765874000657 dimerization interface; other site 765874000658 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase...; Region: trans_reg_C; cd00383 765874000659 DNA binding site 765874000660 exopolyphosphatase; Region: exo_poly_only; TIGR03706 765874000661 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 765874000662 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 765874000663 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 765874000664 NAD(P) binding pocket; other site 765874000665 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 765874000666 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 765874000667 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 765874000668 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 765874000669 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 765874000670 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 765874000671 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 765874000672 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 765874000673 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 765874000674 tRNA; other site 765874000675 putative tRNA binding site; other site 765874000676 putative NADP binding site; other site 765874000677 Glutamyl-tRNAGlu reductase, dimerization domain; Region: GlutR_dimer; pfam00745 765874000678 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 765874000679 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 765874000680 domain interfaces; other site 765874000681 active site 765874000682 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 765874000683 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations...; Region: HemD; cd06578 765874000684 active site 765874000685 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 765874000686 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 765874000687 dimer interface; other site 765874000688 active site 765874000689 Schiff base residues; other site 765874000690 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 765874000691 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 765874000692 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This...; Region: URO-D; cd00717 765874000693 substrate binding site; other site 765874000694 active site 765874000695 Protoporphyrinogen oxidase [Coenzyme metabolism]; Region: HemY; COG1232 765874000696 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 765874000697 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 765874000698 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 765874000699 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 765874000700 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 765874000701 inhibitor-cofactor binding pocket; inhibition site 765874000702 pyridoxal 5'-phosphate binding site; other site 765874000703 catalytic residue; other site 765874000704 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 765874000705 catalytic core; other site 765874000706 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing...; Region: TlpA_like_family; cd02966 765874000707 catalytic residues; other site 765874000708 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 765874000709 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl00515 765874000710 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 765874000711 ResB-like family; Region: ResB; pfam05140 765874000712 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 765874000713 S-adenosylmethionine binding site; other site 765874000714 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 765874000715 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 765874000716 Walker A/P-loop; other site 765874000717 ATP binding site; other site 765874000718 Q-loop/lid; other site 765874000719 ABC transporter signature motif; other site 765874000720 Walker B; other site 765874000721 D-loop; other site 765874000722 H-loop/switch region; other site 765874000723 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 765874000724 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface...; Region: TroA-like; cl00262 765874000725 intersubunit interface; other site 765874000726 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 765874000727 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist...; Region: TM_ABC_iron-siderophores_like; cd06550 765874000728 ABC-ATPase subunit interface; other site 765874000729 dimer interface; other site 765874000730 putative PBP binding regions; other site 765874000731 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 765874000732 UbiA prenyltransferase family; Region: UbiA; cl00337 765874000733 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 765874000734 enoyl-CoA hydratase; Provisional; Region: PRK06142 765874000735 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 765874000736 substrate binding site; other site 765874000737 oxyanion hole (OAH) forming residues; other site 765874000738 trimer interface; other site 765874000739 C4-dicarboxylate anaerobic carrier; Region: DcuC; pfam03606 765874000740 C4-dicarboxylate transporter [Energy production and conversion]; Region: DcuC; cl14617 765874000741 O-succinylbenzoate synthase; Provisional; Region: PRK02901 765874000742 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 765874000743 active site 765874000744 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylate synthase; Validated; Region: PRK07449 765874000745 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 765874000746 dimer interface; other site 765874000747 tetramer interface; other site 765874000748 PYR/PP interface; other site 765874000749 TPP binding site; other site 765874000750 TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key role in the menaquinone biosynthetic pathway, converting...; Region: TPP_SHCHC_synthase; cd02009 765874000751 TPP-binding site; other site 765874000752 Protein of unknown function (DUF3592); Region: DUF3592; pfam12158 765874000753 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule...; Region: GT1_like_2; cd03814 765874000754 UDP-sulfoquinovose:DAG sulfoquinovosyltransferase; Region: PLN02871 765874000755 ubiE/COQ5 methyltransferase family; Region: Ubie_methyltran; pfam01209 765874000756 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 765874000757 S-adenosylmethionine binding site; other site 765874000758 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 765874000759 NAD-dependent, lactate dehydrogenase-like, 2-hydroxycarboxylate dehydrogenase family; Region: LDH_MDH_like; cl11406 765874000760 L-lactate dehydrogenase; Region: L-LDH-NAD; TIGR01771 765874000761 NAD(P) binding site; other site 765874000762 LDH/MDH dimer interface; other site 765874000763 substrate binding site; other site 765874000764 geranylgeranyl reductase family; Region: GG-red-SF; TIGR02032 765874000765 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 765874000766 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 765874000767 substrate binding pocket; other site 765874000768 chain length determination region; other site 765874000769 substrate-Mg2+ binding site; other site 765874000770 catalytic residues; other site 765874000771 aspartate-rich region 1; other site 765874000772 active site lid residues 765874000773 aspartate-rich region 2; other site 765874000774 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 765874000775 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 765874000776 Transcription termination factor nusG; Region: NusG; cl02766 765874000777 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 765874000778 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 765874000779 23S rRNA interface; other site 765874000780 L7/L12 interface; other site 765874000781 putative thiostrepton binding site; other site 765874000782 L25 interface; other site 765874000783 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that...; Region: Ribosomal_L1; cd00403 765874000784 mRNA/rRNA interface; other site 765874000785 potential frameshift: common BLAST hit: gi|237785133|ref|YP_002905838.1| aminopeptidase C 765874000786 C1 Peptidase family (MEROPS database nomenclature), also referred to as the papain family; composed of two subfamilies of cysteine peptidases (CPs), C1A (papain) and C1B (bleomycin hydrolase). Papain-like enzymes are mostly endopeptidases with some...; Region: Peptidase_C1; cl00298 765874000787 active site 765874000788 Peptidase C1B subfamily (MEROPS database nomenclature); composed of eukaryotic bleomycin hydrolases (BH) and bacterial aminopeptidases C (pepC). The proteins of this subfamily contain a large insert relative to the C1A peptidase (papain) subfamily. BH...; Region: Peptidase_C1B; cd00585 765874000789 trimer interface; other site 765874000790 active site 765874000791 G bulge; other site 765874000792 Peptidase C1B subfamily (MEROPS database nomenclature); composed of eukaryotic bleomycin hydrolases (BH) and bacterial aminopeptidases C (pepC). The proteins of this subfamily contain a large insert relative to the C1A peptidase (papain) subfamily. BH...; Region: Peptidase_C1B; cd00585 765874000793 trimer interface; other site 765874000794 active site 765874000795 G bulge; other site 765874000796 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 765874000797 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 765874000798 FMN binding site; other site 765874000799 active site 765874000800 substrate binding site; other site 765874000801 catalytic residue; other site 765874000802 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11...; Region: Ribosomal_L10; cd05797 765874000803 23S rRNA interface; other site 765874000804 Interface with L7/L12 ribosomal proteins; other site 765874000805 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; cl00364 765874000806 L11 interface; other site 765874000807 putative EF-Tu interaction site; other site 765874000808 putative EF-G interaction site; other site 765874000809 putative ABC transporter-associated repeat protein; Region: anch_rpt_wall; TIGR03773 765874000810 actinobacterial surface-anchored protein domain; Region: P_ac_wall_RPT; TIGR03769 765874000811 anchored repeat ABC transporter, substrate-binding protein; Region: anch_rpt_subst; TIGR03772 765874000812 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface...; Region: TroA-like; cl00262 765874000813 actinobacterial surface-anchored protein domain; Region: P_ac_wall_RPT; TIGR03769 765874000814 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface...; Region: TroA-like; cl00262 765874000815 putative ABC transporter-associated repeat protein; Region: anch_rpt_wall; TIGR03773 765874000816 actinobacterial surface-anchored protein domain; Region: P_ac_wall_RPT; TIGR03769 765874000817 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-...; Region: ABC_Metallic_Cations; cd03235 765874000818 anchored repeat-type ABC transporter, ATP-binding subunit; Region: anch_rpt_ABC; TIGR03771 765874000819 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist...; Region: TM_ABC_iron-siderophores_like; cl00462 765874000820 ABC-ATPase subunit interface; other site 765874000821 dimer interface; other site 765874000822 putative PBP binding regions; other site 765874000823 putative ABC transporter-associated repeat protein; Region: anch_rpt_wall; TIGR03773 765874000824 Protein of unknown function (DUF3068); Region: DUF3068; pfam11271 765874000825 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 765874000826 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 765874000827 RNA polymerase beta subunit; Region: RNA_pol_Rpb2_1; cl04591 765874000828 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 765874000829 RPB1 interaction site; other site 765874000830 RPB10 interaction site; other site 765874000831 RPB11 interaction site; other site 765874000832 RPB3 interaction site; other site 765874000833 RPB12 interaction site; other site 765874000834 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK02995 765874000835 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 765874000836 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 765874000837 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 765874000838 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 765874000839 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 765874000840 Rpb1 (beta') - Rpb6 (omega) interaction site; other site 765874000841 G-loop; other site 765874000842 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 765874000843 DNA binding site 765874000844 Rpb1 (beta') - Rpb2 (beta) interaction site; other site 765874000845 Histidine kinase; Region: HisKA_3; pfam07730 765874000846 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 765874000847 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 765874000848 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 765874000849 active site 765874000850 phosphorylation site 765874000851 intermolecular recognition site; other site 765874000852 dimerization interface; other site 765874000853 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors...; Region: LuxR_C_like; cd06170 765874000854 DNA binding residues 765874000855 dimerization interface; other site 765874000856 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 765874000857 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 765874000858 Walker A/P-loop; other site 765874000859 ATP binding site; other site 765874000860 Q-loop/lid; other site 765874000861 ABC transporter signature motif; other site 765874000862 Walker B; other site 765874000863 D-loop; other site 765874000864 H-loop/switch region; other site 765874000865 Domain of unknown function (DUF1980); Region: DUF1980; cl01492 765874000866 Predicted permease; Region: DUF318; cl00487 765874000867 anaerobic ribonucleoside-triphosphate reductase activating protein; Region: NrdG2; TIGR02495 765874000868 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 765874000869 FeS/SAM binding site; other site 765874000870 anaerobic ribonucleoside-triphosphate reductase; Region: NrdD; TIGR02487 765874000871 Class III ribonucleotide reductase; Region: RNR_III; cd01675 765874000872 effector binding site; other site 765874000873 active site 765874000874 Zn binding site; other site 765874000875 glycine loop; other site 765874000876 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 765874000877 S17 interaction site; other site 765874000878 S8 interaction site; other site 765874000879 16S rRNA interaction site; other site 765874000880 streptomycin interaction site; other site 765874000881 23S rRNA interaction site; other site 765874000882 aminoacyl-tRNA interaction site (A-site); other site 765874000883 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 765874000884 elongation factor G; Reviewed; Region: PRK00007 765874000885 Elongation factor G (EF-G) subfamily. Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved...; Region: EF-G; cd01886 765874000886 G1 box; other site 765874000887 putative GEF interaction site; other site 765874000888 GTP/Mg2+ binding site; other site 765874000889 Switch I region; other site 765874000890 G2 box; other site 765874000891 G3 box; other site 765874000892 Switch II region; other site 765874000893 G4 box; other site 765874000894 G5 box; other site 765874000895 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide...; Region: EFG_mtEFG_II; cd04088 765874000896 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor...; Region: EFG_mtEFG1_IV; cd01434 765874000897 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor...; Region: EFG_mtEFG_C; cd03713 765874000898 elongation factor Tu; Reviewed; Region: PRK00049 765874000899 EF-Tu subfamily. This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors...; Region: EF_Tu; cd01884 765874000900 G1 box; other site 765874000901 GEF interaction site; other site 765874000902 GTP/Mg2+ binding site; other site 765874000903 Switch I region; other site 765874000904 G2 box; other site 765874000905 G3 box; other site 765874000906 Switch II region; other site 765874000907 G4 box; other site 765874000908 G5 box; other site 765874000909 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 765874000910 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 765874000911 Antibiotic Binding Site; other site 765874000912 Protein of unknown function (DUF322); Region: DUF322; cl00574 765874000913 Protein of unknown function (DUF322); Region: DUF322; cl00574 765874000914 Protein of unknown function (DUF322); Region: DUF322; cl00574 765874000915 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 765874000916 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 765874000917 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 765874000918 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 765874000919 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 765874000920 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 765874000921 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 765874000922 Ribosomal protein S19; Region: Ribosomal_S19; cl00350 765874000923 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 765874000924 putative translocon binding site; other site 765874000925 protein-rRNA interface; other site 765874000926 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 765874000927 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The...; Region: 30S_S3_KH; cd02412 765874000928 G-X-X-G motif; other site 765874000929 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 765874000930 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 765874000931 23S rRNA interface; other site 765874000932 5S rRNA interface; other site 765874000933 putative antibiotic binding site; other site 765874000934 L25 interface; other site 765874000935 L27 interface; other site 765874000936 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where...; Region: Ribosomal_L29_HIP; cd00427 765874000937 putative translocon interaction site; other site 765874000938 23S rRNA interface; other site 765874000939 signal recognition particle (SRP54) interaction site; other site 765874000940 L23 interface; other site 765874000941 trigger factor interaction site; other site 765874000942 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 765874000943 The substrate-binding domain of mycobacterial lipoprotein Lpqw contains type 2 periplasmic binding fold; Region: PBP2_Lpqw; cd08501 765874000944 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 765874000945 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 765874000946 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 765874000947 Walker A/P-loop; other site 765874000948 ATP binding site; other site 765874000949 Q-loop/lid; other site 765874000950 ABC transporter signature motif; other site 765874000951 Walker B; other site 765874000952 D-loop; other site 765874000953 H-loop/switch region; other site 765874000954 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 765874000955 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 765874000956 Walker A/P-loop; other site 765874000957 ATP binding site; other site 765874000958 Q-loop/lid; other site 765874000959 ABC transporter signature motif; other site 765874000960 Walker B; other site 765874000961 D-loop; other site 765874000962 H-loop/switch region; other site 765874000963 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 765874000964 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 765874000965 dimer interface; other site 765874000966 conserved gate region; other site 765874000967 putative PBP binding loops; other site 765874000968 ABC-ATPase subunit interface; other site 765874000969 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 765874000970 putative PBP binding loops; other site 765874000971 dimer interface; other site 765874000972 ABC-ATPase subunit interface; other site 765874000973 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 765874000974 KOW motif; Region: KOW; cl00354 765874000975 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 765874000976 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 765874000977 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 765874000978 Amino acid permeases [Amino acid transport and metabolism]; Region: SdaC; COG0814 765874000979 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 765874000980 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 765874000981 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 765874000982 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 765874000983 Asparaginase (amidohydrolase): Asparaginases are tetrameric enzymes that catalyze the hydrolysis of asparagine to aspartic acid and ammonia. In bacteria, there are two classes of amidohydrolases, one highly specific for asparagine and localised to the...; Region: Asparaginase; cl00216 765874000984 active site/substrate binding site 765874000985 tetramer interface; other site 765874000986 PAP2, bacterial acid phosphatase or class A non-specific acid phosphatases. These enzymes catalyze phosphomonoester hydrolysis, with optimal activity in low pH conditions. They are secreted into the periplasmic space, and their physiological role...; Region: PAP2_acid_phosphatase; cd03397 765874000987 active site 765874000988 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 765874000989 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 765874000990 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 765874000991 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 765874000992 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 765874000993 5S rRNA interface; other site 765874000994 23S rRNA interface; other site 765874000995 L5 interface; other site 765874000996 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 765874000997 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 765874000998 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 765874000999 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins...; Region: Ribosomal_L30; cd01658 765874001000 23S rRNA binding site; other site 765874001001 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 765874001002 Maltose-binding periplasmic proteins/domains [Carbohydrate transport and metabolism]; Region: MalE; COG2182 765874001003 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 765874001004 ABC-type polysaccharide transport system, permease component [Carbohydrate transport and metabolism]; Region: LplB; COG4209 765874001005 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 765874001006 dimer interface; other site 765874001007 conserved gate region; other site 765874001008 putative PBP binding loops; other site 765874001009 ABC-ATPase subunit interface; other site 765874001010 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 765874001011 dimer interface; other site 765874001012 conserved gate region; other site 765874001013 putative PBP binding loops; other site 765874001014 ABC-ATPase subunit interface; other site 765874001015 Formate/nitrite transporter; Region: Form_Nir_trans; cl00927 765874001016 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 765874001017 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 765874001018 Walker A/P-loop; other site 765874001019 ATP binding site; other site 765874001020 Q-loop/lid; other site 765874001021 ABC transporter signature motif; other site 765874001022 Walker B; other site 765874001023 D-loop; other site 765874001024 H-loop/switch region; other site 765874001025 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 765874001026 eubacterial secY protein; Region: SecY; pfam00344 765874001027 adenylate kinase; Reviewed; Region: adk; PRK00279 765874001028 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 765874001029 AMP-binding site; other site 765874001030 ATP-AMP (Ap5A)-binding site; other site 765874001031 potential frameshift: common BLAST hit: gi|62389448|ref|YP_224850.1| methionine aminopeptidase 765874001032 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate...; Region: APP_MetAP; cl00279 765874001033 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 765874001034 active site 765874001035 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 765874001036 catalytic site; other site 765874001037 Asp-box motif; other site 765874001038 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 765874001039 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 765874001040 rRNA binding site; other site 765874001041 predicted 30S ribosome binding site; other site 765874001042 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 765874001043 Ribosomal protein S13 [Translation, ribosomal structure and biogenesis]; Region: RpsM; COG0099 765874001044 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 765874001045 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 765874001046 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 765874001047 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 765874001048 RNA binding surface; other site 765874001049 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 765874001050 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 765874001051 alphaNTD - beta interaction site; other site 765874001052 alphaNTD homodimer interface; other site 765874001053 alphaNTD - beta' interaction site; other site 765874001054 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 765874001055 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 765874001056 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 765874001057 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 765874001058 dimerization interface 3.5A; other site 765874001059 active site 765874001060 Protein of unknown function (DUF690); Region: DUF690; pfam05108 765874001061 Putative transmembrane protein (PGPGW); Region: PGPGW; cl09870 765874001062 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 765874001063 active site 765874001064 catalytic residues; other site 765874001065 Protein of unknown function (DUF571); Region: DUF571; pfam04600 765874001066 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 765874001067 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 765874001068 Proteins of 100 residues with WXG; Region: WXG100; cl02005 765874001069 Proteins of 100 residues with WXG; Region: WXG100; cl02005 765874001070 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 765874001071 23S rRNA interface; other site 765874001072 L3 interface; other site 765874001073 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 765874001074 phosphoglucosamine mutase; Provisional; Region: glmM; PRK14318 765874001075 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of UDP-N-...; Region: GlmM; cd05802 765874001076 active site 765874001077 substrate binding site; other site 765874001078 metal-binding site 765874001079 Chlorophyllase; Region: Chlorophyllase; cl06316 765874001080 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 765874001081 alanine racemase; Reviewed; Region: alr; PRK00053 765874001082 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 765874001083 active site 765874001084 pyridoxal 5'-phosphate (PLP) binding site; other site 765874001085 dimer interface; other site 765874001086 substrate binding site; other site 765874001087 catalytic residues; other site 765874001088 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 765874001089 Predicted permease [General function prediction only]; Region: COG2985 765874001090 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 765874001091 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 765874001092 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 765874001093 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 765874001094 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 765874001095 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 765874001096 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 765874001097 Coenzyme A binding pocket; other site 765874001098 putative DNA-binding/iron metalloprotein/AP endonuclease; Reviewed; Region: PRK09604 765874001099 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts...; Region: cpn10; cd00320 765874001100 oligomerisation interface; other site 765874001101 mobile loop; other site 765874001102 roof hairpin; other site 765874001103 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 765874001104 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 765874001105 ring oligomerisation interface; other site 765874001106 ATP/Mg binding site; other site 765874001107 stacking interactions; other site 765874001108 hinge regions; other site 765874001109 RNA polymerase sigma factor SigD; Reviewed; Region: PRK09648 765874001110 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 765874001111 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial...; Region: Sigma70_r4; cd06171 765874001112 DNA binding residues 765874001113 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 765874001114 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 765874001115 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the inosine 5' monophosphate dehydrogenase (IMPDH) protein. IMPDH is an essential enzyme that catalyzes the first step unique to GTP synthesis, playing a key...; Region: CBS_pair_IMPDH; cd04601 765874001116 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the...; Region: IMPDH; cd00381 765874001117 active site 765874001118 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK08649 765874001119 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 765874001120 phosphate binding site; other site 765874001121 GMP synthase; Reviewed; Region: guaA; PRK00074 765874001122 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 765874001123 AMP/PPi binding site; other site 765874001124 candidate oxyanion hole; other site 765874001125 catalytic triad; other site 765874001126 potential glutamine specificity residues; other site 765874001127 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 765874001128 ATP Binding subdomain; other site 765874001129 Ligand Binding sites; other site 765874001130 Dimerization subdomain; other site 765874001131 PspC domain; Region: PspC; cl00864 765874001132 Predicted membrane protein (DUF2154); Region: DUF2154; cl12089 765874001133 PspC domain; Region: PspC; cl00864 765874001134 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 765874001135 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 765874001136 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 765874001137 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 765874001138 active site 765874001139 phosphorylation site 765874001140 intermolecular recognition site; other site 765874001141 dimerization interface; other site 765874001142 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors...; Region: LuxR_C_like; cd06170 765874001143 dimerization interface; other site 765874001144 DNA binding residues 765874001145 TRX-like [2Fe-2S] Ferredoxin (Fd) family, Sucrase subfamily; composed of proteins with similarity to a novel plant enzyme, isolated from potato, which contains a Fd-like domain and exhibits sucrolytic activity. The putative active site of the Fd-like...; Region: TRX_Fd_Sucrase; cd03062 765874001146 putative dimer interface; other site 765874001147 putative [2Fe-2S] cluster binding site; other site 765874001148 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 765874001149 ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]; Region: AbcC; COG1135 765874001150 MetN (also known as YusC) is an ABC-type transporter encoded by metN of the metNPQ operon in Bacillus subtilis that is involved in methionine transport. Other members of this system include the MetP permease and the MetQ substrate binding protein...; Region: ABC_MetN_methionine_transporter; cd03258 765874001151 Walker A/P-loop; other site 765874001152 ATP binding site; other site 765874001153 Q-loop/lid; other site 765874001154 ABC transporter signature motif; other site 765874001155 Walker B; other site 765874001156 D-loop; other site 765874001157 H-loop/switch region; other site 765874001158 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 765874001159 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 765874001160 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface...; Region: TroA-like; cl00262 765874001161 intersubunit interface; other site 765874001162 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 765874001163 ABC component of the metal-type transporters. This family includes transporters involved in the uptake of various metallic cations such as iron, manganese, and zinc. The ATPases of this group of transporters are very similar to members of iron-...; Region: ABC_Metallic_Cations; cd03235 765874001164 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist...; Region: TM_ABC_iron-siderophores_like; cd06550 765874001165 ABC-ATPase subunit interface; other site 765874001166 dimer interface; other site 765874001167 putative PBP binding regions; other site 765874001168 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist...; Region: TM_ABC_iron-siderophores_like; cl00462 765874001169 ABC-ATPase subunit interface; other site 765874001170 dimer interface; other site 765874001171 putative PBP binding regions; other site 765874001172 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 765874001173 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 765874001174 Iron dependent repressor, metal binding and dimerization domain; Region: Fe_dep_repr_C; pfam02742 765874001175 FeoA domain; Region: FeoA; cl00838 765874001176 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 765874001177 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14193 765874001178 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 765874001179 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 765874001180 homodimer interface; other site 765874001181 NADP binding site; other site 765874001182 substrate binding site; other site 765874001183 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins...; Region: HNHc; cd00085 765874001184 active site 765874001185 potential frameshift: common BLAST hit: gi|38233230|ref|NP_938997.1| homoserine O-acetyltransferase 765874001186 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 765874001187 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 765874001188 Htaa; Region: HtaA; pfam04213 765874001189 Htaa; Region: HtaA; pfam04213 765874001190 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface...; Region: TroA-like; cl00262 765874001191 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 765874001192 intersubunit interface; other site 765874001193 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 765874001194 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist...; Region: TM_ABC_iron-siderophores_like; cd06550 765874001195 ABC-ATPase subunit interface; other site 765874001196 dimer interface; other site 765874001197 putative PBP binding regions; other site 765874001198 hemin importer ATP-binding subunit; Provisional; Region: hmuV; PRK13548 765874001199 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 765874001200 Walker A/P-loop; other site 765874001201 ATP binding site; other site 765874001202 Q-loop/lid; other site 765874001203 ABC transporter signature motif; other site 765874001204 Walker B; other site 765874001205 D-loop; other site 765874001206 H-loop/switch region; other site 765874001207 Htaa; Region: HtaA; pfam04213 765874001208 potential frameshift: common BLAST hit: gi|38233237|ref|NP_939004.1| O-acetylhomoserine aminocarboxypropyltransferase 765874001209 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 765874001210 pyridoxal 5'-phosphate binding pocket; other site 765874001211 catalytic residue; other site 765874001212 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 765874001213 pyridoxal 5'-phosphate binding pocket; other site 765874001214 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 765874001215 isocitrate dehydrogenase, NADP-dependent, monomeric type; Region: monomer_idh; TIGR00178 765874001216 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 765874001217 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 765874001218 putative substrate translocation pore; other site 765874001219 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 765874001220 Helix-Turn-Helix DNA binding domain of the transcription regulators TipAL, Mta, and SkgA; Region: HTH_TipAL-Mta; cd01106 765874001221 DNA binding residues 765874001222 dimer interface; other site 765874001223 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 765874001224 Endonuclease/Exonuclease/phosphatase family; Region: Exo_endo_phos; cl00490 765874001225 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 765874001226 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 765874001227 active site 765874001228 HIGH motif; other site 765874001229 dimer interface; other site 765874001230 KMSKS motif; other site 765874001231 Ribonuclease BN-like family; Region: Ribonuclease_BN; cl07918 765874001232 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 765874001233 Beta-lactamase; Region: Beta-lactamase; cl01009 765874001234 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have...; Region: metallo-dependent_hydrolases; cl00281 765874001235 NlpC/P60 family; Region: NLPC_P60; cl11438 765874001236 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 765874001237 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 765874001238 non-specific DNA binding site; other site 765874001239 salt bridge; other site 765874001240 sequence-specific DNA binding site; other site 765874001241 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 deoxyribose-1-...; Region: PGM2; cd05799 765874001242 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 765874001243 active site 765874001244 substrate binding site; other site 765874001245 metal-binding site 765874001246 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 765874001247 Peptidase dimerization domain; Region: M20_dimer; cl09126 765874001248 flavoprotein disulfide reductase; Reviewed; Region: PRK07845 765874001249 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 765874001250 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 765874001251 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 765874001252 pyruvate carboxylase; Reviewed; Region: PRK12999 765874001253 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 765874001254 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 765874001255 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 765874001256 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 765874001257 active site 765874001258 catalytic residues; other site 765874001259 metal-binding site 765874001260 homodimer binding site; other site 765874001261 Conserved carboxylase domain; Region: PYC_OADA; pfam02436 765874001262 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 765874001263 carboxyltransferase (CT) interaction site; other site 765874001264 biotinylation site; other site 765874001265 Major Facilitator Superfamily; Region: MFS_1; pfam07690 765874001266 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 765874001267 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 765874001268 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 765874001269 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 765874001270 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 765874001271 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 765874001272 oxaloacetate decarboxylase; Provisional; Region: PRK14040 765874001273 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 765874001274 carboxyltransferase (CT) interaction site; other site 765874001275 biotinylation site; other site 765874001276 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 765874001277 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but...; Region: TST_Repeat_1; cd01448 765874001278 active site residue 765874001279 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 765874001280 active site residue 765874001281 Predicted acyltransferases [Lipid metabolism]; Region: COG1835; cl00792 765874001282 Protein of unknown function (DUF3151); Region: DUF3151; pfam11349 765874001283 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 765874001284 active site 765874001285 dimer interface; other site 765874001286 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase, 2-...; Region: ribokinase_pfkB_like; cl00192 765874001287 substrate binding site; other site 765874001288 ATP binding site; other site 765874001289 Transcriptional regulators [Transcription]; Region: PurR; COG1609 765874001290 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 765874001291 DNA binding site 765874001292 domain linker motif; other site 765874001293 Ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia; Region: PBP1_LacI_like_13; cd06299 765874001294 putative ligand binding site; other site 765874001295 dimerization interface; other site 765874001296 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 765874001297 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 765874001298 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 765874001299 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 765874001300 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 765874001301 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 765874001302 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 765874001303 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 765874001304 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 765874001305 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 765874001306 AIR carboxylase; Region: AIRC; cl00310 765874001307 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 765874001308 putative active site; other site 765874001309 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 765874001310 dimer interface; other site 765874001311 conserved gate region; other site 765874001312 putative PBP binding loops; other site 765874001313 ABC-ATPase subunit interface; other site 765874001314 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 765874001315 dimer interface; other site 765874001316 conserved gate region; other site 765874001317 putative PBP binding loops; other site 765874001318 ABC-ATPase subunit interface; other site 765874001319 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 765874001320 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 765874001321 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 765874001322 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 765874001323 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 765874001324 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 765874001325 Probable Catalytic site; other site 765874001326 metal-binding site 765874001327 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 765874001328 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 765874001329 active site 765874001330 Substrate binding site; other site 765874001331 Mg++ binding site; other site 765874001332 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 765874001333 putative trimer interface; other site 765874001334 putative CoA binding site; other site 765874001335 Transcription factor WhiB; Region: Whib; pfam02467 765874001336 Protein of unknown function (DUF3499); Region: DUF3499; pfam12005 765874001337 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 765874001338 phosphomannomutase/phosphoglucomutase; Reviewed; Region: manB; PRK09542 765874001339 active site 765874001340 substrate binding site; other site 765874001341 metal-binding site 765874001342 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 765874001343 Phosphomannose isomerase type I; Region: PMI_typeI; pfam01238 765874001344 mannose-6-phosphate isomerase; Provisional; Region: PLN03067; cl11740 765874001345 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 765874001346 S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado...; Region: AdoHcyase; cd00401 765874001347 oligomerization interface; other site 765874001348 active site 765874001349 NAD+ binding site; other site 765874001350 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting...; Region: TMPK; cd01672 765874001351 Thymidylate kinase [Nucleotide transport and metabolism]; Region: Tmk; COG0125 765874001352 TMP-binding site; other site 765874001353 ATP-binding site; other site 765874001354 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 765874001355 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 765874001356 active site 765874001357 phosphorylation site 765874001358 intermolecular recognition site; other site 765874001359 dimerization interface; other site 765874001360 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase...; Region: trans_reg_C; cd00383 765874001361 DNA binding site 765874001362 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cd06225 765874001363 dimerization interface; other site 765874001364 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 765874001365 dimer interface; other site 765874001366 phosphorylation site 765874001367 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 765874001368 ATP binding site; other site 765874001369 Mg2+ binding site; other site 765874001370 G-X-G motif; other site 765874001371 lipoprotein LpqB; Provisional; Region: PRK13616 765874001372 Sporulation and spore germination; Region: Germane; pfam10646 765874001373 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 765874001374 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 765874001375 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 765874001376 30S subunit binding site; other site 765874001377 SecA DEAD-like domain; Region: SecA_DEAD; pfam07517 765874001378 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; cl12029 765874001379 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 765874001380 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 765874001381 nucleotide binding region; other site 765874001382 SecA Wing and Scaffold domain; Region: SecA_SW; pfam07516 765874001383 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 765874001384 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_2; cd06216 765874001385 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 765874001386 FAD binding pocket; other site 765874001387 FAD binding motif; other site 765874001388 phosphate binding motif; other site 765874001389 beta-alpha-beta structure motif; other site 765874001390 NAD binding pocket; other site 765874001391 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cd00207 765874001392 catalytic loop; other site 765874001393 iron binding site; other site 765874001394 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 765874001395 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These...; Region: Delta6-FADS-like; cd03506 765874001396 putative di-iron ligands; other site 765874001397 Predicted GTPases [General function prediction only]; Region: COG1162 765874001398 YjeQ/EngC. YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence...; Region: YjeQ_engC; cd01854 765874001399 GTPase/OB domain interface; other site 765874001400 GTPase/Zn-binding domain interface; other site 765874001401 GTP/Mg2+ binding site; other site 765874001402 G4 box; other site 765874001403 G5 box; other site 765874001404 G1 box; other site 765874001405 Switch I region; other site 765874001406 G2 box; other site 765874001407 G3 box; other site 765874001408 Switch II region; other site 765874001409 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 5-enolpyruvylshkimate-3-...; Region: EPSP_synthase; cd01556 765874001410 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 765874001411 hinge; other site 765874001412 active site 765874001413 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS); Region: YbaK_deacylase; cd00002 765874001414 putative deacylase active site; other site 765874001415 RNA polymerase sigma-70 factor, TIGR02947 family; Region: SigH_actino 765874001416 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 765874001417 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial...; Region: Sigma70_r4; cd06171 765874001418 DNA binding residues 765874001419 anti-sigma factor, TIGR02949 family; Region: anti_SigH_actin 765874001420 Transcription factor WhiB; Region: Whib; pfam02467 765874001421 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 765874001422 active site 765874001423 catalytic triad; other site 765874001424 oxyanion hole; other site 765874001425 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 765874001426 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 765874001427 ATP binding site; other site 765874001428 Mg++ binding site; other site 765874001429 motif III; other site 765874001430 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 765874001431 nucleotide binding region; other site 765874001432 Protein of unknown function (DUF3107); Region: DUF3107; pfam11305 765874001433 Protein of unknown function (DUF3152); Region: DUF3152; pfam11350 765874001434 conserved hypothetical protein TIGR02569, Actinobacterial; Region: TIGR02569_actnb 765874001435 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 765874001436 UvrD/REP helicase; Region: UvrD-helicase; cl14126 765874001437 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 765874001438 Domain of unknown function DUF83; Region: Cas_Cas4; cl00641 765874001439 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 765874001440 UvrD/REP helicase; Region: UvrD-helicase; cl14126 765874001441 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 765874001442 Domain of unknown function DUF83; Region: Cas_Cas4; cl00641 765874001443 Ion channel; Region: Ion_trans_2; cl11596 765874001444 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 765874001445 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 765874001446 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 765874001447 putative NADH binding site; other site 765874001448 putative active site; other site 765874001449 nudix motif; other site 765874001450 putative metal binding site; other site 765874001451 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 765874001452 UvrD/REP helicase; Region: UvrD-helicase; cl14126 765874001453 HRDC domain; Region: HRDC; cl02578 765874001454 Protein of unknown function DUF45; Region: DUF45; cl00636 765874001455 Uncharacterized conserved protein (DUF2342); Region: DUF2342; cl02183 765874001456 Predicted secreted protein containing a PDZ domain [Signal transduction mechanisms]; Region: SdrC; COG3480 765874001457 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-...; Region: PDZ_serine_protease; cd00987 765874001458 protein binding site; other site 765874001459 Uncharacterized conserved protein [Function unknown]; Region: COG1615; cl09133 765874001460 Uncharacterized protein family (UPF0182); Region: UPF0182; pfam03699 765874001461 Abi-like protein; Region: Abi_2; cl01988 765874001462 Predicted helicase [General function prediction only]; Region: COG4889 765874001463 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 765874001464 ATP binding site; other site 765874001465 putative Mg++ binding site; other site 765874001466 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; cl12029 765874001467 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this two-...; Region: SirA_YedF_YeeD; cl00436 765874001468 nitrite reductase, copper-containing; Region: Cu_nitrite_red; TIGR02376 765874001469 Multicopper oxidase; Region: Cu-oxidase; cl11412 765874001470 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic...; Region: Tryp_SPc; cl00149 765874001471 Predicted membrane protein [Function unknown]; Region: COG2311 765874001472 Protein of unknown function (DUF1624); Region: DUF1624; cl01394 765874001473 long-chain-acyl-CoA synthetase; Validated; Region: PRK08279 765874001474 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 765874001475 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 765874001476 L-aminoadipate-semialdehyde dehydrogenase; Region: alpha_am_amid; TIGR03443 765874001477 Phosphopantetheine attachment site; Region: PP-binding; cl09936 765874001478 non-ribosomal peptide synthetase terminal domain of unknown function; Region: NRPS_term_dom; TIGR02353 765874001479 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 765874001480 putative trimer interface; other site 765874001481 putative CoA binding site; other site 765874001482 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 765874001483 putative trimer interface; other site 765874001484 putative CoA binding site; other site 765874001485 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 765874001486 Amino acid permease; Region: AA_permease; pfam00324 765874001487 oxaloacetate decarboxylase; Provisional; Region: PRK12330 765874001488 Pyruvate carboxylase and Transcarboxylase 5S, carboxyltransferase domain; Region: DRE_TIM_PC_TC_5S; cd07937 765874001489 active site 765874001490 catalytic residues; other site 765874001491 metal-binding site 765874001492 homodimer binding site; other site 765874001493 Conserved carboxylase domain; Region: PYC_OADA; pfam02436 765874001494 methylmalonyl-CoA decarboxylase alpha subunit; Region: mmdA; TIGR01117 765874001495 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 765874001496 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 765874001497 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 765874001498 carboxyltransferase (CT) interaction site; other site 765874001499 biotinylation site; other site 765874001500 Predominantly bacterial family of Mg++ dependend phosphatases, related to inositol monophosphatases. These enzymes may dephosphorylate fructose-1,6-bisphosphate, inositol monophospate, 3'-phosphoadenosine-5'-phosphate, or similar substrates; Region: Bacterial_IMPase_like_1; cd01641 765874001501 active site 765874001502 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1,6-; Region: IMPase_like; cd01637 765874001503 active site 765874001504 peptide chain release factor 2; Validated; Region: prfB; PRK00578 765874001505 RF-1 domain; Region: RF-1; cl02875 765874001506 RF-1 domain; Region: RF-1; cl02875 765874001507 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside...; Region: NK; cl11962 765874001508 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 765874001509 p-Aminobenzoyl-glutamate transporter family; Region: ydaH; TIGR00819 765874001510 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 765874001511 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 765874001512 Walker A/P-loop; other site 765874001513 ATP binding site; other site 765874001514 Q-loop/lid; other site 765874001515 ABC transporter signature motif; other site 765874001516 Walker B; other site 765874001517 D-loop; other site 765874001518 H-loop/switch region; other site 765874001519 Predicted permease; Region: FtsX; cl11418 765874001520 SmpB protein; Region: SmpB; cl00482 765874001521 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; cl00391 765874001522 active site clefts 765874001523 zinc binding site; other site 765874001524 dimer interface; other site 765874001525 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 765874001526 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface...; Region: TroA-like; cl00262 765874001527 intersubunit interface; other site 765874001528 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist...; Region: TM_ABC_iron-siderophores_like; cd06550 765874001529 ABC-ATPase subunit interface; other site 765874001530 dimer interface; other site 765874001531 putative PBP binding regions; other site 765874001532 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 765874001533 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist...; Region: TM_ABC_iron-siderophores_like; cd06550 765874001534 ABC-ATPase subunit interface; other site 765874001535 dimer interface; other site 765874001536 putative PBP binding regions; other site 765874001537 ABC-type enterochelin transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CeuD; COG4604 765874001538 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 765874001539 Walker A/P-loop; other site 765874001540 ATP binding site; other site 765874001541 Q-loop/lid; other site 765874001542 ABC transporter signature motif; other site 765874001543 Walker B; other site 765874001544 D-loop; other site 765874001545 H-loop/switch region; other site 765874001546 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 765874001547 catalytic residue; other site 765874001548 homodimer interface; other site 765874001549 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 765874001550 pyridoxal 5'-phosphate binding site; other site 765874001551 Protein of unknown function (DUF3239); Region: DUF3239; pfam11580 765874001552 DNA repair helicase rad25; Region: rad25; TIGR00603 765874001553 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 765874001554 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; cl12029 765874001555 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 765874001556 nucleotide binding region; other site 765874001557 ATP-binding site; other site 765874001558 Transglycosylase-like domain; Region: Transglycosylas; pfam06737 765874001559 Protein of unknown function (DUF3235); Region: DUF3235; pfam11574 765874001560 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 765874001561 DNA binding site 765874001562 RNA-binding motif; other site 765874001563 Protein of unknown function (DUF2771); Region: DUF2771; pfam10969 765874001564 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 765874001565 Protein of unknown function (DUF3027); Region: DUF3027; pfam11228 765874001566 Permease family; Region: Xan_ur_permease; cl00967 765874001567 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 765874001568 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 765874001569 Protein of unknown function (DUF3071); Region: DUF3071; pfam11268 765874001570 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 765874001571 pyridoxal 5'-phosphate binding pocket; other site 765874001572 catalytic residue; other site 765874001573 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 765874001574 dimer interface; other site 765874001575 Citrate synthase; Region: Citrate_synt; pfam00285 765874001576 active site 765874001577 citrylCoA binding site; other site 765874001578 NADH binding; other site 765874001579 cationic pore residues; other site 765874001580 oxalacetate/citrate binding site; other site 765874001581 coenzyme A binding site; other site 765874001582 catalytic triad; other site 765874001583 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 765874001584 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 765874001585 Carboxyl transferase domain; Region: Carboxyl_trans; pfam01039 765874001586 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 765874001587 Copper/zinc superoxide dismutase (SOD). superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen. Three evolutionarily distinct families of SODs are known, of which the copper/zinc-binding family is one. Defects in the...; Region: Cu-Zn_Superoxide_Dismutase; cd00305 765874001588 E-class dimer interface; other site 765874001589 P-class dimer interface; other site 765874001590 active site 765874001591 Cu2+ binding site; other site 765874001592 Zn2+ binding site; other site 765874001593 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and...; Region: Aldo_ket_red; cd06660 765874001594 active site 765874001595 catalytic tetrad; other site 765874001596 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 765874001597 substrate binding site; other site 765874001598 oxyanion hole (OAH) forming residues; other site 765874001599 trimer interface; other site 765874001600 Protein of unknown function, DUF485; Region: DUF485; cl01231 765874001601 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 765874001602 Sodium:solute symporter family; Region: SSF; cl00456 765874001603 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 765874001604 active site 765874001605 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 765874001606 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 765874001607 Host cell surface-exposed lipoprotein; Region: Lipoprotein_Ltp; pfam07553 765874001608 Host cell surface-exposed lipoprotein; Region: Lipoprotein_Ltp; pfam07553 765874001609 multidrug efflux protein NorA; Provisional; Region: PRK00187 765874001610 MatE; Region: MatE; pfam01554 765874001611 MatE; Region: MatE; pfam01554 765874001612 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 765874001613 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 765874001614 dimer interface; other site 765874001615 pyridoxal 5'-phosphate binding site; other site 765874001616 catalytic residue; other site 765874001617 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 765874001618 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes; Region: PLPDE_III; cl00261 765874001619 pyridoxal 5'-phosphate (PLP) binding site; other site 765874001620 catalytic residue; other site 765874001621 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 765874001622 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 765874001623 Clavaminic acid synthetase (CAS) -like; CAS is a trifunctional Fe(II)/ 2-oxoglutarate (2OG) oxygenase carrying out three reactions in the biosynthesis of clavulanic acid, an inhibitor of class A serine beta-lactamases. In general, Fe(II)-2OG...; Region: CAS_like; cl00184 765874001624 substrate binding pocket; other site 765874001625 active site 765874001626 iron coordination sites; other site 765874001627 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 765874001628 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 765874001629 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 765874001630 dimer interface; other site 765874001631 conserved gate region; other site 765874001632 putative PBP binding loops; other site 765874001633 ABC-ATPase subunit interface; other site 765874001634 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 765874001635 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 765874001636 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 765874001637 Walker A/P-loop; other site 765874001638 ATP binding site; other site 765874001639 Q-loop/lid; other site 765874001640 ABC transporter signature motif; other site 765874001641 Walker B; other site 765874001642 D-loop; other site 765874001643 H-loop/switch region; other site 765874001644 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 765874001645 Walker A/P-loop; other site 765874001646 ATP binding site; other site 765874001647 Q-loop/lid; other site 765874001648 ABC transporter signature motif; other site 765874001649 Walker B; other site 765874001650 D-loop; other site 765874001651 H-loop/switch region; other site 765874001652 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 765874001653 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide...; Region: NrdH; cd02976 765874001654 catalytic residues; other site 765874001655 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5,10-...; Region: DHFR; cd00209 765874001656 folate binding site; other site 765874001657 NADP+ binding site; other site 765874001658 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 765874001659 dimerization interface; other site 765874001660 active site 765874001661 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in cysteine...; Region: CysQ; cd01638 765874001662 active site 765874001663 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 765874001664 putative ATP-dependent helicase Lhr; Provisional; Region: PRK09751 765874001665 ATP binding site; other site 765874001666 putative Mg++ binding site; other site 765874001667 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 765874001668 nucleotide binding region; other site 765874001669 ATP-binding site; other site 765874001670 DEAD/H associated; Region: DEAD_assoc; pfam08494 765874001671 Uracil DNA glycosylase superfamily; Region: UDG; cl00483 765874001672 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 765874001673 N-terminal domain of the actinomycetal Nei2 and related DNA glycosylases; Region: AcNei2_N; cd08971 765874001674 putative DNA binding site; other site 765874001675 putative catalytic residues; other site 765874001676 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 765874001677 hypothetical protein; Provisional; Region: PRK11770 765874001678 Domain of unknown function (DUF307); Region: DUF307; pfam03733 765874001679 Domain of unknown function (DUF307); Region: DUF307; pfam03733 765874001680 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 765874001681 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 765874001682 active site 765874001683 dimer interface; other site 765874001684 Phosphoglucose isomerase (PGI) contains two SIS (Sugar ISomerase) domains. This classification is based on the alignment of the second SIS domain. PGI is a multifunctional enzyme which as an intracellular dimer catalyzes the reversible isomerization of...; Region: SIS_PGI_2; cd05016 765874001685 dimer interface; other site 765874001686 active site 765874001687 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 765874001688 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 765874001689 tetramerization interface; other site 765874001690 NAD(P) binding site; other site 765874001691 catalytic residues; other site 765874001692 Chorismate mutase type II; Region: CM_2; cl00693 765874001693 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 765874001694 UvrD/REP helicase; Region: UvrD-helicase; cl14126 765874001695 UvrD/REP helicase; Region: UvrD-helicase; cl14126 765874001696 Peptidase family M23; Region: Peptidase_M23; pfam01551 765874001697 Formyl transferase; Region: Formyl_trans_N; cl00395 765874001698 phosphoribosylglycinamide formyltransferase, formyltetrahydrofolate-dependent; Region: PurN; TIGR00639 765874001699 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 765874001700 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates 5-aminoimidazole-4-carboxamide-; Region: IMPCH; cd01421 765874001701 purine monophosphate binding site; other site 765874001702 dimer interface; other site 765874001703 putative catalytic residues; other site 765874001704 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 765874001705 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 765874001706 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 765874001707 Walker A/P-loop; other site 765874001708 ATP binding site; other site 765874001709 Q-loop/lid; other site 765874001710 ABC transporter signature motif; other site 765874001711 Walker B; other site 765874001712 D-loop; other site 765874001713 H-loop/switch region; other site 765874001714 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 765874001715 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and...; Region: PBPb; cd00134 765874001716 substrate binding pocket; other site 765874001717 membrane-bound complex binding site; other site 765874001718 hinge residues; other site 765874001719 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 765874001720 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 765874001721 dimer interface; other site 765874001722 conserved gate region; other site 765874001723 putative PBP binding loops; other site 765874001724 ABC-ATPase subunit interface; other site 765874001725 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 765874001726 dimer interface; other site 765874001727 conserved gate region; other site 765874001728 putative PBP binding loops; other site 765874001729 ABC-ATPase subunit interface; other site 765874001730 Malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate cycle, which allows certain organisms, like plants and fungi, to derive their...; Region: malate_synt; cl09155 765874001731 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 765874001732 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 765874001733 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 765874001734 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 765874001735 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 765874001736 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 765874001737 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 765874001738 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 765874001739 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 765874001740 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 765874001741 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 765874001742 active site 765874001743 phosphorylation site 765874001744 intermolecular recognition site; other site 765874001745 dimerization interface; other site 765874001746 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase...; Region: trans_reg_C; cd00383 765874001747 DNA binding site 765874001748 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cd06225 765874001749 dimerization interface; other site 765874001750 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 765874001751 dimer interface; other site 765874001752 phosphorylation site 765874001753 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 765874001754 ATP binding site; other site 765874001755 Mg2+ binding site; other site 765874001756 G-X-G motif; other site 765874001757 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic...; Region: Tryp_SPc; cl00149 765874001758 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind C-...; Region: PDZ_serine_protease; cd00987 765874001759 protein binding site; other site 765874001760 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea...; Region: MogA_MoaB; cd00886 765874001761 MPT binding site; other site 765874001762 trimer interface; other site 765874001763 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 765874001764 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 765874001765 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 765874001766 active site 765874001767 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 765874001768 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 765874001769 dimer interface; other site 765874001770 putative functional site; other site 765874001771 putative MPT binding site; other site 765874001772 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 765874001773 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 765874001774 DoxX; Region: DoxX; cl00976 765874001775 Predicted integral membrane protein [Function unknown]; Region: COG5660 765874001776 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT; cl01961 765874001777 Dolichyl-phosphate-mannose--protein O-mannosyl transferase [Posttranslational modification, protein turnover, chaperones]; Region: PMT1; COG1928 765874001778 BCCT family transporter; Region: BCCT; cl00569 765874001779 Uncharacterized membrane protein [Function unknown]; Region: COG3949 765874001780 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 765874001781 methionyl-tRNA synthetase; Reviewed; Region: PRK12268 765874001782 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 765874001783 active site 765874001784 HIGH motif; other site 765874001785 KMSKS motif; other site 765874001786 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 765874001787 tRNA binding surface; other site 765874001788 anticodon binding site; other site 765874001789 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 765874001790 active site 765874001791 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3583 765874001792 Domain of unknown function (DUF348); Region: DUF348; pfam03990 765874001793 Domain of unknown function (DUF348); Region: DUF348; pfam03990 765874001794 G5 domain; Region: G5; pfam07501 765874001795 Transglycosylase-like domain; Region: Transglycosylas; pfam06737 765874001796 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 765874001797 S-adenosylmethionine binding site; other site 765874001798 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: PRK03188 765874001799 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 765874001800 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 765874001801 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 765874001802 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 765874001803 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 765874001804 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 765874001805 potential frameshift: common BLAST hit: gi|62389808|ref|YP_225210.1| HAD family hydrolase 765874001806 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 765874001807 Predicted hydrolases of the HAD superfamily [General function prediction only]; Region: Cof; COG0561 765874001808 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 765874001809 active site 765874001810 motif I; other site 765874001811 motif II; other site 765874001812 potential frameshift: common BLAST hit: gi|38233482|ref|NP_939249.1| 3-hydroxyisobutyryl-CoA hydrolase 765874001813 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 765874001814 substrate binding site; other site 765874001815 oxyanion hole (OAH) forming residues; other site 765874001816 trimer interface; other site 765874001817 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 765874001818 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 765874001819 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl12058 765874001820 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 765874001821 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 765874001822 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 765874001823 Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]; Region: PrfC; COG4108 765874001824 RF3 subfamily. Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and...; Region: RF3; cd04169 765874001825 G1 box; other site 765874001826 putative GEF interaction site; other site 765874001827 GTP/Mg2+ binding site; other site 765874001828 Switch I region; other site 765874001829 G2 box; other site 765874001830 G3 box; other site 765874001831 Switch II region; other site 765874001832 G4 box; other site 765874001833 G5 box; other site 765874001834 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding...; Region: Translation_Factor_II_like; cl02787 765874001835 acetoacetyl-CoA reductase; Provisional; Region: PRK12824 765874001836 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 765874001837 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 765874001838 putative active site; other site 765874001839 catalytic residue; other site 765874001840 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin...; Region: NPD_like; cd04730 765874001841 FMN binding site; other site 765874001842 substrate binding site; other site 765874001843 putative catalytic residue; other site 765874001844 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 765874001845 putative active site; other site 765874001846 catalytic residue; other site 765874001847 Ribosomal_L25_TL5_CTC: Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain. L25 is a single-domain protein, homologous to the N-terminal domain of TL5 and CTC, which each contain two domains. CTC is a known stress protein, and proteins of this...; Region: Ribosomal_L25_TL5_CTC; cd00495 765874001848 5S rRNA interface; other site 765874001849 CTC domain interface; other site 765874001850 L16 interface; other site 765874001851 pullulanase, type I; Region: pulA_typeI; TIGR02104 765874001852 Pullulanase domain N-terminus. Pullulanase (AKA dextrinase; alpha-dextrin endo-1,6-alpha glucosidase) is an enzyme with action similar to that of isoamylase; it cleaves 1,6-alpha-glucosidic linkages in pullulan, amylopectin, and glycogen, and in alpha-...; Region: Pullulanase_N_term; cd02860 765874001853 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 765874001854 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 765874001855 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 765874001856 bifunctional N-acetylglucosamine-1-phosphate uridyltransferase/glucosamine-1-phosphate acetyltransferase; Provisional; Region: glmU; PRK14352 765874001857 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 765874001858 Substrate binding site; other site 765874001859 Mg++ binding site; other site 765874001860 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 765874001861 active site 765874001862 substrate binding site; other site 765874001863 CoA binding site; other site 765874001864 multicopper oxidase; Provisional; Region: PRK10965 765874001865 Multicopper oxidase; Region: Cu-oxidase; cl11412 765874001866 Multicopper oxidase; Region: Cu-oxidase; cl11412 765874001867 C4-dicarboxylate transporter/malic acid transport protein; Region: C4dic_mal_tran; cl04176 765874001868 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 765874001869 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 765874001870 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 765874001871 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 765874001872 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 765874001873 ATP binding site; other site 765874001874 putative Mg++ binding site; other site 765874001875 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 765874001876 nucleotide binding region; other site 765874001877 ATP-binding site; other site 765874001878 TRCF domain; Region: TRCF; pfam03461 765874001879 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 765874001880 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 765874001881 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: PRK12334 765874001882 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00737 765874001883 lytic murein transglycosylase; Region: MltB_2; TIGR02283 765874001884 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 765874001885 N-acetyl-D-glucosamine binding site; other site 765874001886 phosphopyruvate hydratase; Provisional; Region: eno; PRK00077 765874001887 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 765874001888 dimer interface; other site 765874001889 metal-binding site 765874001890 substrate binding pocket; other site 765874001891 Septum formation initiator; Region: DivIC; cl11433 765874001892 Protein of unknown function (DUF501); Region: DUF501; cl00652 765874001893 exopolyphosphatase; Region: exo_poly_only; TIGR03706 765874001894 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 765874001895 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 765874001896 Predicted membrane protein [Function unknown]; Region: COG4760 765874001897 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 765874001898 domain; Region: GreA_GreB_N; pfam03449 765874001899 C-term; Region: GreA_GreB; pfam01272 765874001900 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 765874001901 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 765874001902 catalytic residue; other site 765874001903 putative FPP diphosphate binding site; other site 765874001904 putative FPP binding hydrophobic cleft; other site 765874001905 dimer interface; other site 765874001906 putative IPP diphosphate binding site; other site 765874001907 YcaO-like family; Region: YcaO; cl09146 765874001908 pantothenate kinase; Provisional; Region: PRK05439 765874001909 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 765874001910 ATP-binding site; other site 765874001911 CoA-binding site; other site 765874001912 Mg2+-binding site; other site 765874001913 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of...; Region: SHMT; cd00378 765874001914 dimer interface; other site 765874001915 glycine-pyridoxal phosphate binding site; other site 765874001916 active site 765874001917 folate binding site; other site 765874001918 Major Facilitator Superfamily; Region: MFS_1; pfam07690 765874001919 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 765874001920 putative substrate translocation pore; other site 765874001921 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 765874001922 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 765874001923 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 765874001924 dimerization interface; other site 765874001925 Uncharacterized protein potentially involved in peptidoglycan biosynthesis [Cell envelope biogenesis, outer membrane]; Region: COG5479 765874001926 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 765874001927 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 765874001928 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 765874001929 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 765874001930 putative substrate translocation pore; other site 765874001931 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 765874001932 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 765874001933 fumarate hydratase; Reviewed; Region: fumC; PRK00485 765874001934 Class II fumarases; Region: Fumarase_classII; cd01362 765874001935 active site 765874001936 tetramer interface; other site 765874001937 Fructose-1,6-bisphosphatase/sedoheptulose 1,7-bisphosphatase and related proteins [Carbohydrate transport and metabolism]; Region: GlpX; COG1494 765874001938 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 765874001939 putative active site; other site 765874001940 Exonuclease VII small subunit; Region: Exonuc_VII_S; cl00750 765874001941 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 765874001942 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a single-strand-...; Region: ExoVII_LU_OBF; cd04489 765874001943 generic binding surface II; other site 765874001944 generic binding surface I; other site 765874001945 LytB protein; Region: LYTB; cl00507 765874001946 (E)-4-hydroxy-3-methyl-but-2-enyl pyrophosphate reductase (IPP and DMAPP forming); Region: ispH_lytB; TIGR00216 765874001947 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 765874001948 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 765874001949 Domain of unknown function DUF20; Region: UPF0118; cl00465 765874001950 GTP-dependent nucleic acid-binding protein EngD; Reviewed; Region: PRK09601 765874001951 YchF subfamily. YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated...; Region: YchF; cd01900 765874001952 G1 box; other site 765874001953 GTP/Mg2+ binding site; other site 765874001954 Switch I region; other site 765874001955 G2 box; other site 765874001956 Switch II region; other site 765874001957 G3 box; other site 765874001958 G4 box; other site 765874001959 G5 box; other site 765874001960 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 765874001961 Protein of unknown function, DUF488; Region: DUF488; cl01246 765874001962 PhnA protein; Region: PhnA; pfam03831 765874001963 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 765874001964 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 765874001965 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 765874001966 Walker A/P-loop; other site 765874001967 ATP binding site; other site 765874001968 Q-loop/lid; other site 765874001969 ABC transporter signature motif; other site 765874001970 Walker B; other site 765874001971 D-loop; other site 765874001972 H-loop/switch region; other site 765874001973 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 765874001974 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 765874001975 Walker A/P-loop; other site 765874001976 ATP binding site; other site 765874001977 Q-loop/lid; other site 765874001978 ABC transporter signature motif; other site 765874001979 Walker B; other site 765874001980 D-loop; other site 765874001981 H-loop/switch region; other site 765874001982 potential frameshift: common BLAST hit: gi|62389974|ref|YP_225376.1| putative excinuclease ATPase subunit-UvrA-like protein 765874001983 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 765874001984 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 765874001985 Q-loop/lid; other site 765874001986 ABC transporter signature motif; other site 765874001987 Walker B; other site 765874001988 D-loop; other site 765874001989 H-loop/switch region; other site 765874001990 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 765874001991 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 765874001992 Walker A/P-loop; other site 765874001993 ATP binding site; other site 765874001994 Q-loop/lid; other site 765874001995 Protein of unknown function (DUF808); Region: DUF808; cl01002 765874001996 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 765874001997 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 765874001998 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 765874001999 ABC-type cobalt transport system, permease component; Region: ABC_cobalt; cl01943 765874002000 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 765874002001 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 765874002002 Walker A/P-loop; other site 765874002003 ATP binding site; other site 765874002004 Q-loop/lid; other site 765874002005 ABC transporter signature motif; other site 765874002006 Walker B; other site 765874002007 D-loop; other site 765874002008 H-loop/switch region; other site 765874002009 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 765874002010 cobalt transport protein ATP-binding subunit; Region: cbiO; TIGR01166 765874002011 Walker A/P-loop; other site 765874002012 ATP binding site; other site 765874002013 Q-loop/lid; other site 765874002014 ABC transporter signature motif; other site 765874002015 Walker B; other site 765874002016 D-loop; other site 765874002017 H-loop/switch region; other site 765874002018 Cobalt transport protein; Region: CbiQ; cl00463 765874002019 Predicted kinase [General function prediction only]; Region: COG0645 765874002020 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside...; Region: NK; cl11962 765874002021 active site 765874002022 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 765874002023 nudix motif; other site 765874002024 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 765874002025 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 765874002026 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 765874002027 dimer interface; other site 765874002028 conserved gate region; other site 765874002029 ABC-ATPase subunit interface; other site 765874002030 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 765874002031 dimer interface; other site 765874002032 conserved gate region; other site 765874002033 putative PBP binding loops; other site 765874002034 ABC-ATPase subunit interface; other site 765874002035 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 765874002036 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 765874002037 Walker A/P-loop; other site 765874002038 ATP binding site; other site 765874002039 Q-loop/lid; other site 765874002040 ABC transporter signature motif; other site 765874002041 Walker B; other site 765874002042 D-loop; other site 765874002043 H-loop/switch region; other site 765874002044 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 765874002045 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 765874002046 Walker A/P-loop; other site 765874002047 ATP binding site; other site 765874002048 Q-loop/lid; other site 765874002049 ABC transporter signature motif; other site 765874002050 Walker B; other site 765874002051 D-loop; other site 765874002052 H-loop/switch region; other site 765874002053 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic...; Region: Tryp_SPc; cl00149 765874002054 cleavage site 765874002055 active site 765874002056 substrate binding sites; other site 765874002057 Arsenate Reductase (ArsC) family, ArsC subfamily; arsenic reductases similar to that encoded by arsC on the R733 plasmid of Escherichia coli. E. coli ArsC catalyzes the reduction of arsenate [As(V)] to arsenite [As(III)], the first step in the...; Region: ArsC_ArsC; cd03034 765874002058 catalytic residues; other site 765874002059 Protein of unknown function (DUF402); Region: DUF402; cl00979 765874002060 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras; Region: Ras_like_GTPase; cl10444 765874002061 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 765874002062 G1 box; other site 765874002063 GTP/Mg2+ binding site; other site 765874002064 G2 box; other site 765874002065 Switch I region; other site 765874002066 G3 box; other site 765874002067 Switch II region; other site 765874002068 G4 box; other site 765874002069 G5 box; other site 765874002070 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 765874002071 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a...; Region: BipA_TypA_C; cd03710 765874002072 The substrate-binding domain of mycobacterial lipoprotein Lpqw contains type 2 periplasmic binding fold; Region: PBP2_Lpqw; cd08501 765874002073 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 765874002074 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 765874002075 Ferredoxin [Energy production and conversion]; Region: COG1146 765874002076 4Fe-4S binding domain; Region: Fer4; pfam00037 765874002077 histidinol-phosphate aminotransferase; Provisional; Region: PRK05166 765874002078 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 765874002079 pyridoxal 5'-phosphate binding site; other site 765874002080 homodimer interface; other site 765874002081 catalytic residue; other site 765874002082 GtrA-like protein; Region: GtrA; cl00971 765874002083 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins...; Region: HNHc; cd00085 765874002084 active site 765874002085 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 765874002086 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_actino; TIGR03535 765874002087 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 765874002088 putative trimer interface; other site 765874002089 putative CoA binding site; other site 765874002090 Transmembrane amino acid transporter protein; Region: Aa_trans; cl00524 765874002091 Amino acid permease; Region: AA_permease; pfam00324 765874002092 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase; Region: DapD_actino; TIGR03535 765874002093 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 765874002094 putative trimer interface; other site 765874002095 putative CoA binding site; other site 765874002096 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 765874002097 Peptidase dimerization domain; Region: M20_dimer; cl09126 765874002098 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 765874002099 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 765874002100 substrate binding pocket; other site 765874002101 dimer interface; other site 765874002102 inhibitor binding site; inhibition site 765874002103 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 765874002104 Ligand binding site; other site 765874002105 Putative Catalytic site; other site 765874002106 DXD motif; other site 765874002107 DivIVA domain; Region: DivI1A_domain; TIGR03544 765874002108 Protein of unknown function (DUF3117); Region: DUF3117; pfam11314 765874002109 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 765874002110 Glycosyl hydrolases family 32; Region: Glyco_32; smart00640 765874002111 Glycosyl hydrolases family 43; Region: Glyco_hydro_43; cl09152 765874002112 Glycosyl hydrolases family 32 C terminal; Region: Glyco_hydro_32C; pfam08244 765874002113 Alpha-acetolactate decarboxylase; Region: AAL_decarboxy; cl01408 765874002114 glycogen synthase, Corynebacterium family; Region: glgA_Coryne; TIGR02149 765874002115 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 765874002116 glucose-1-phosphate adenylyltransferase; Provisional; Region: glgC; PRK00844 765874002117 ADP-glucose pyrophosphorylase is involved in the biosynthesis of glycogen or starch; Region: ADP_Glucose_PP; cd02508 765874002118 ligand binding site; other site 765874002119 oligomer interface; other site 765874002120 Glucose-1-phosphate adenylyltransferase, C-terminal Left-handed parallel beta helix (LbH) domain: Glucose-1-phosphate adenylyltransferase is also known as ADP-glucose synthase or ADP-glucose pyrophosphorylase. It catalyzes the first committed and rate-...; Region: LbH_G1P_AT_C; cd04651 765874002121 dimer interface; other site 765874002122 N-terminal domain interface; other site 765874002123 sulfate 1 binding site; other site 765874002124 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 765874002125 RNA polymerase sigma factor SigE; Reviewed; Region: PRK09647 765874002126 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 765874002127 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial...; Region: Sigma70_r4; cd06171 765874002128 DNA binding residues 765874002129 sec-independent translocase; Provisional; Region: tatB; PRK00182 765874002130 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 765874002131 putative ATPase; Provisional; Region: PRK11670 765874002132 Domain of unknown function DUF59; Region: DUF59; cl00941 765874002133 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 765874002134 Protein of unknown function (DUF1003); Region: DUF1003; cl01831 765874002135 MgtE intracellular N domain; Region: MgtE_N; pfam03448 765874002136 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 765874002137 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 765874002138 alpha-ketoglutarate decarboxylase; Reviewed; Region: kgd; PRK12270 765874002139 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 765874002140 TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of 2-oxoglutarate to succinyl-CoA and carbon dioxide, a key reaction of...; Region: TPP_E1_OGDC_like; cd02016 765874002141 TPP-binding site; other site 765874002142 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 765874002143 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 765874002144 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 765874002145 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 765874002146 Walker A/P-loop; other site 765874002147 ATP binding site; other site 765874002148 Q-loop/lid; other site 765874002149 ABC transporter signature motif; other site 765874002150 Walker B; other site 765874002151 D-loop; other site 765874002152 H-loop/switch region; other site 765874002153 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 765874002154 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 765874002155 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 765874002156 Walker A/P-loop; other site 765874002157 ATP binding site; other site 765874002158 Q-loop/lid; other site 765874002159 ABC transporter signature motif; other site 765874002160 Walker B; other site 765874002161 D-loop; other site 765874002162 H-loop/switch region; other site 765874002163 shikimate 5-dehydrogenase; Reviewed; Region: PRK12550 765874002164 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 765874002165 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 765874002166 shikimate binding site; other site 765874002167 NAD(P) binding site; other site 765874002168 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 765874002169 Carboxylesterase type B [Lipid metabolism]; Region: PnbA; COG2272 765874002170 substrate binding pocket; other site 765874002171 catalytic triad; other site 765874002172 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 765874002173 Galactose mutarotase and related enzymes [Carbohydrate transport and metabolism]; Region: GalM; COG2017 765874002174 Aldose 1-epimerase; Region: Aldose_epim; cl00476 765874002175 putative symporter YidK; Provisional; Region: PRK10484 765874002176 Sodium:solute symporter family; Region: SSF; cl00456 765874002177 Galactose-1-phosphate uridylyltransferase [Energy production and conversion]; Region: GalT; COG1085 765874002178 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the...; Region: HIT_like; cl00228 765874002179 nucleotide binding site/active site; other site 765874002180 HIT family signature motif; other site 765874002181 catalytic residue; other site 765874002182 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 765874002183 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 765874002184 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 765874002185 Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]; Region: SrmB; COG0513 765874002186 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 765874002187 ATP binding site; other site 765874002188 Mg++ binding site; other site 765874002189 motif III; other site 765874002190 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 765874002191 nucleotide binding region; other site 765874002192 ATP-binding site; other site 765874002193 DbpA RNA binding domain; Region: DbpA; pfam03880 765874002194 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 765874002195 dimer interface; other site 765874002196 Domain of unknown function (DUF1994); Region: DUF1994; pfam09352 765874002197 Sodium:solute symporter family; Region: SSF; cl00456 765874002198 SNF2 Helicase protein; Region: DUF3670; pfam12419 765874002199 SNF2 family N-terminal domain; Region: SNF2_N; pfam00176 765874002200 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 765874002201 ATP binding site; other site 765874002202 putative Mg++ binding site; other site 765874002203 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 765874002204 nucleotide binding region; other site 765874002205 ATP-binding site; other site 765874002206 Uncharacterized conserved protein [Function unknown]; Region: COG4279 765874002207 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 765874002208 DNA repair exonuclease [DNA replication, recombination, and repair]; Region: SbcD; COG0420 765874002209 active site 765874002210 metal-binding site 765874002211 DNA binding site 765874002212 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 765874002213 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 765874002214 Chromosome segregation ATPases [Cell division and chromosome partitioning]; Region: Smc; COG1196 765874002215 YceI-like domain; Region: YceI; cl01001 765874002216 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 765874002217 PspC domain; Region: PspC; cl00864 765874002218 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 765874002219 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 765874002220 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 765874002221 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 765874002222 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]; Region: COG1139 765874002223 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 765874002224 Domain of unknown function (DUF3390); Region: DUF3390; pfam11870 765874002225 Cysteine-rich domain; Region: CCG; pfam02754 765874002226 Cysteine-rich domain; Region: CCG; pfam02754 765874002227 L-lactate permease; Provisional; Region: PRK10420 765874002228 L-lactate permease; Region: Lactate_perm; cl00701 765874002229 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; pfam03485 765874002230 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 765874002231 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 765874002232 active site 765874002233 HIGH motif; other site 765874002234 KMSK motif region; other site 765874002235 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 765874002236 tRNA binding surface; other site 765874002237 anticodon binding site; other site 765874002238 diaminopimelate decarboxylase; Region: lysA; TIGR01048 765874002239 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 765874002240 active site 765874002241 pyridoxal 5'-phosphate (PLP) binding site; other site 765874002242 substrate binding site; other site 765874002243 catalytic residues; other site 765874002244 dimer interface; other site 765874002245 homoserine dehydrogenase; Provisional; Region: PRK06349 765874002246 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 765874002247 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 765874002248 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 765874002249 homoserine kinase; Provisional; Region: PRK01212 765874002250 Predicted transcriptional regulator [Transcription]; Region: COG2345 765874002251 Drought induced 19 protein (Di19); Region: Di19; pfam05605 765874002252 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK05620 765874002253 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 765874002254 transcription termination factor Rho; Provisional; Region: PRK12678 765874002255 Rho termination factor, N-terminal domain; Region: Rho_N; pfam07498 765874002256 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 765874002257 RNA binding site; other site 765874002258 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of...; Region: rho_factor; cd01128 765874002259 multimer interface; other site 765874002260 Walker A motif; other site 765874002261 ATP binding site; other site 765874002262 Walker B motif; other site 765874002263 peptide chain release factor 1; Validated; Region: prfA; PRK00591 765874002264 RF-1 domain; Region: RF-1; cl02875 765874002265 RF-1 domain; Region: RF-1; cl02875 765874002266 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 765874002267 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 765874002268 S-adenosylmethionine binding site; other site 765874002269 yrdC domain; Region: Sua5_yciO_yrdC; cl00305 765874002270 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 765874002271 Mg++ binding site; other site 765874002272 putative catalytic motif; other site 765874002273 substrate binding site; other site 765874002274 ATP synthase A chain; Region: ATP-synt_A; cl00413 765874002275 ATP synthase subunit C; Region: ATP-synt_C; cl00466 765874002276 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 765874002277 F0F1-type ATP synthase, delta subunit (mitochondrial oligomycin sensitivity protein) [Energy production and conversion]; Region: AtpH; cl00491 765874002278 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 765874002279 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 765874002280 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 765874002281 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 765874002282 beta subunit interaction interface; other site 765874002283 Walker A motif; other site 765874002284 ATP binding site; other site 765874002285 Walker B motif; other site 765874002286 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 765874002287 ATP synthase; Region: ATP-synt; cl00365 765874002288 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 765874002289 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 765874002290 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 765874002291 alpha subunit interaction interface; other site 765874002292 Walker A motif; other site 765874002293 ATP binding site; other site 765874002294 Walker B motif; other site 765874002295 inhibitor binding site; inhibition site 765874002296 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 765874002297 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 765874002298 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 765874002299 Protein of unknown function (DUF2550); Region: DUF2550; pfam10739 765874002300 Protein of unknown function DUF91; Region: DUF91; cl00709 765874002301 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 765874002302 dimer interface; other site 765874002303 substrate binding site; other site 765874002304 metal-binding site 765874002305 Domain of unknown function DUF77; Region: DUF77; cl00307 765874002306 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 765874002307 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 765874002308 glycogen branching enzyme; Provisional; Region: PRK05402 765874002309 Glycogen branching enzyme N-terminus domain. Glycogen branching enzyme (AKA 1,4 alpha glucan branching enzyme) catalyzes the formation of alpha-1,6 branch points in either glycogen or starch by cleavage of the alpha-1,4 glucosidic linkage yielding a...; Region: Glycogen_branching_enzyme_N_term; cd02855 765874002310 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 765874002311 Alpha amylase, C-terminal all-beta domain; Region: Alpha-amylase_C; cl02706 765874002312 Domain of unknown function (DUF3416); Region: DUF3416; pfam11896 765874002313 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 765874002314 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 765874002315 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 765874002316 Walker A/P-loop; other site 765874002317 ATP binding site; other site 765874002318 ABC transporter signature motif; other site 765874002319 Walker B; other site 765874002320 D-loop; other site 765874002321 H-loop/switch region; other site 765874002322 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_beta; cd01714 765874002323 Ligand binding site; other site 765874002324 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 765874002325 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 765874002326 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 765874002327 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 765874002328 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 765874002329 pyridoxal 5'-phosphate binding pocket; other site 765874002330 catalytic residue; other site 765874002331 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 765874002332 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 765874002333 The URO-D_CIMS_like protein superfamily includes bacterial and eukaryotic uroporphyrinogen decarboxylases (URO-D), coenzyme M methyltransferases and other putative bacterial methyltransferases, as well as cobalamine (B12) independent methionine...; Region: URO-D_CIMS_like; cl00464 765874002334 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 765874002335 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 765874002336 active site 765874002337 substrate binding site; other site 765874002338 catalytic site; other site 765874002339 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 765874002340 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 765874002341 nucleotide binding pocket; other site 765874002342 K-X-D-G motif; other site 765874002343 catalytic site; other site 765874002344 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 765874002345 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 765874002346 Breast Cancer Suppressor Protein (BRCA1), carboxy-terminal domain. The BRCT domain is found within many DNA damage repair and cell cycle checkpoint proteins. The unique diversity of this domain superfamily allows BRCT modules to interact forming homo/...; Region: BRCT; cd00027 765874002347 Dimer interface; other site 765874002348 BRCT sequence motif; other site 765874002349 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 765874002350 Glu-tRNAGln amidotransferase C subunit; Region: Glu-tRNAGln; cl00495 765874002351 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 765874002352 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 765874002353 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 765874002354 Major Facilitator Superfamily; Region: MFS_1; pfam07690 765874002355 putative substrate translocation pore; other site 765874002356 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 765874002357 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist...; Region: TM_ABC_iron-siderophores_like; cd06550 765874002358 ABC-ATPase subunit interface; other site 765874002359 dimer interface; other site 765874002360 putative PBP binding regions; other site 765874002361 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 765874002362 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 765874002363 Walker A/P-loop; other site 765874002364 ATP binding site; other site 765874002365 Q-loop/lid; other site 765874002366 ABC transporter signature motif; other site 765874002367 Walker B; other site 765874002368 D-loop; other site 765874002369 H-loop/switch region; other site 765874002370 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 765874002371 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 765874002372 putative ligand binding residues; other site 765874002373 6-phosphofructokinase; Provisional; Region: PRK03202 765874002374 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 765874002375 active site 765874002376 ADP/pyrophosphate binding site; other site 765874002377 dimerization interface; other site 765874002378 allosteric effector site; other site 765874002379 fructose-1,6-bisphosphate binding site; other site 765874002380 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 765874002381 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 765874002382 GatB domain; Region: GatB_Yqey; cl11497 765874002383 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and...; Region: Aldo_ket_red; cd06660 765874002384 active site 765874002385 catalytic tetrad; other site 765874002386 LysE type translocator; Region: LysE; cl00565 765874002387 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 765874002388 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 765874002389 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 765874002390 dimerization interface; other site 765874002391 Domain of unknown function (DUF1994); Region: DUF1994; pfam09352 765874002392 DoxX; Region: DoxX; cl00976 765874002393 potential frameshift: common BLAST hit: gi|38233690|ref|NP_939457.1| dihydroxy-acid dehydratase 765874002394 Dehydratase family; Region: ILVD_EDD; cl00340 765874002395 Dehydratase family; Region: ILVD_EDD; cl00340 765874002396 Protein of unknown function (DUF2581); Region: DUF2581; pfam10756 765874002397 Mechanosensitive ion channel; Region: MS_channel; pfam00924 765874002398 acetolactate synthase 1 catalytic subunit; Validated; Region: PRK07789 765874002399 potential frameshift: common BLAST hit: gi|38233692|ref|NP_939459.1| acetolactate synthase 1 catalytic subunit 765874002400 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 765874002401 PYR/PP interface; other site 765874002402 dimer interface; other site 765874002403 TPP binding site; other site 765874002404 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 765874002405 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin...; Region: TPP_enzymes; cl01629 765874002406 TPP-binding site; other site 765874002407 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin...; Region: TPP_enzymes; cl01629 765874002408 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 765874002409 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 765874002410 putative valine binding site; other site 765874002411 dimer interface; other site 765874002412 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 765874002413 ketol-acid reductoisomerase; Provisional; Region: PRK05479 765874002414 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 765874002415 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 765874002416 Cation efflux family; Region: Cation_efflux; cl00316 765874002417 Protein of unknown function DUF262; Region: DUF262; pfam03235 765874002418 Uncharacterized conserved protein (DUF2081); Region: DUF2081; cl09179 765874002419 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK13581 765874002420 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 765874002421 C-terminal ACT (regulatory) domain of D-3-phosphoglycerate dehydrogenase (3PGDH); Region: ACT_3PGDH-xct; cd04902 765874002422 putative L-serine binding site; other site 765874002423 Isocitrate/isopropylmalate dehydrogenase; Region: Iso_dh; cl00445 765874002424 Predicted signal-transduction protein containing cAMP-binding and CBS domains [Signal transduction mechanisms]; Region: COG2905 765874002425 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cd00038 765874002426 ligand binding site; other site 765874002427 flexible hinge region; other site 765874002428 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain...; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 765874002429 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 765874002430 metal binding triad; other site 765874002431 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 765874002432 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 765874002433 active site 765874002434 substrate binding site; other site 765874002435 catalytic site; other site 765874002436 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 765874002437 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 765874002438 chorismate binding enzyme; Region: Chorismate_bind; cl10555 765874002439 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 765874002440 catalytic core domain of descriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 765874002441 active site 765874002442 HIGH motif; other site 765874002443 catalytic core domain of descriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 765874002444 KMSKS motif; other site 765874002445 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 765874002446 Cutinase; Region: Cutinase; pfam01083 765874002447 biotin synthase; Validated; Region: PRK06256 765874002448 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 765874002449 FeS/SAM binding site; other site 765874002450 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 765874002451 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 765874002452 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 765874002453 Transcriptional regulator [Transcription]; Region: IclR; COG1414 765874002454 Bacterial transcriptional regulator; Region: IclR; pfam01614 765874002455 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 765874002456 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 765874002457 substrate binding site; other site 765874002458 ligand binding site; other site 765874002459 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate 3-...; Region: IPMI_Swivel; cd01577 765874002460 substrate binding site; other site 765874002461 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 765874002462 active site 765874002463 Ap6A binding site; other site 765874002464 nudix motif; other site 765874002465 metal-binding site 765874002466 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 765874002467 catalytic core; other site 765874002468 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 765874002469 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 765874002470 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 765874002471 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 765874002472 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 765874002473 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 765874002474 Protein of unknown function (DUF3515); Region: DUF3515; pfam12028 765874002475 Protein of unknown function (DUF3515); Region: DUF3515; pfam12028 765874002476 thiamine monophosphate kinase; Provisional; Region: PRK05731 765874002477 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 765874002478 ATP binding site; other site 765874002479 dimerization interface; other site 765874002480 Uracil DNA glycosylase superfamily; Region: UDG; cl00483 765874002481 DAK2 domain fusion protein YloV; Region: YloV; TIGR03599 765874002482 DAK2 domain; Region: Dak2; cl03685 765874002483 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 765874002484 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a four-...; Region: RecG_wedge_OBF; cd04488 765874002485 generic binding surface II; other site 765874002486 ssDNA binding site; other site 765874002487 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 765874002488 ATP binding site; other site 765874002489 putative Mg++ binding site; other site 765874002490 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 765874002491 nucleotide binding region; other site 765874002492 ATP-binding site; other site 765874002493 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 765874002494 carboxyltransferase (CT) interaction site; other site 765874002495 biotinylation site; other site 765874002496 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 765874002497 S-adenosylmethionine binding site; other site 765874002498 Nicotinic acid mononucleotide adenylyltransferase [Coenzyme metabolism]; Region: NadD; COG1057 765874002499 Phosphopantetheine adenylyltransferase; Region: PPAT_a; cd02163 765874002500 active site 765874002501 substrate binding site; other site 765874002502 active site motif 765874002503 Sulfite exporter TauE/SafE; Region: TauE; cl00498 765874002504 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 765874002505 hypothetical protein; Provisional; Region: PRK10281 765874002506 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 765874002507 HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively. Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP...; Region: ABC_HisP_GlnQ_permeases; cd03262 765874002508 Walker A/P-loop; other site 765874002509 ATP binding site; other site 765874002510 Q-loop/lid; other site 765874002511 ABC transporter signature motif; other site 765874002512 Walker B; other site 765874002513 D-loop; other site 765874002514 H-loop/switch region; other site 765874002515 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 765874002516 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 765874002517 dimer interface; other site 765874002518 conserved gate region; other site 765874002519 putative PBP binding loops; other site 765874002520 ABC-ATPase subunit interface; other site 765874002521 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and...; Region: PBPb; cd00134 765874002522 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 765874002523 substrate binding pocket; other site 765874002524 membrane-bound complex binding site; other site 765874002525 hinge residues; other site 765874002526 Domain of unknown function (DUF368); Region: DUF368; cl00893 765874002527 DNA polymerase I; Provisional; Region: PRK05755 765874002528 5'-3' exonuclease; T5 type 5'-3' exonuclease domains may co-occur with DNA polymerase I (Pol I) domains, or be part of Pol I containing complexes. They digest dsDNA and ssDNA, releasing mono-,di- and tri-nucleotides, as well as oligonucleotides, and...; Region: 53EXOc; cd00008 765874002529 metal binding site I; metal-binding site 765874002530 putative ssDNA interaction site; other site 765874002531 metal binding site II; metal-binding site 765874002532 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 765874002533 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 765874002534 active site 765874002535 DNA binding site 765874002536 catalytic site; other site 765874002537 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 765874002538 S-adenosylmethionine binding site; other site 765874002539 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK07899 765874002540 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 765874002541 RNA binding site; other site 765874002542 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 765874002543 RNA binding site; other site 765874002544 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 765874002545 RNA binding site; other site 765874002546 S1_RPS1_repeat_hs4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_hs4; cd05692 765874002547 RNA binding site; other site 765874002548 PTS system, sucrose-specific IIBC component; Region: PTS-II-BC-sucr; TIGR01996 765874002549 PTS_IIB, PTS system, glucose/sucrose specific IIB subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIB_glc; cd00212 765874002550 active site turn 765874002551 phosphorylation site 765874002552 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 765874002553 PTS_IIA, PTS system, glucose/sucrose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_glc; cl00162 765874002554 HPr interaction site; other site 765874002555 glycerol kinase (GK) interaction site; other site 765874002556 active site 765874002557 phosphorylation site 765874002558 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 765874002559 ATP-binding; other site 765874002560 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 765874002561 CoA-binding site; other site 765874002562 Predicted Fe-S oxidoreductases [General function prediction only]; Region: COG0535 765874002563 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 765874002564 FeS/SAM binding site; other site 765874002565 excinuclease ABC subunit B; Provisional; Region: PRK05298 765874002566 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 765874002567 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 765874002568 nucleotide binding region; other site 765874002569 ATP-binding site; other site 765874002570 Ultra-violet resistance protein B; Region: UvrB; pfam12344 765874002571 UvrB/uvrC motif; Region: UVR; pfam02151 765874002572 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 765874002573 Ligand Binding Site; other site 765874002574 Superfamily I DNA and RNA helicases [General function prediction only]; Region: COG3973 765874002575 UvrD/REP helicase; Region: UvrD-helicase; cl14126 765874002576 UvrD/REP helicase; Region: UvrD-helicase; cl14126 765874002577 DoxX; Region: DoxX; cl00976 765874002578 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 765874002579 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 765874002580 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 765874002581 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 765874002582 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 765874002583 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 765874002584 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 765874002585 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 765874002586 Ribosomal protein L20; Region: Ribosomal_L20; cl00393 765874002587 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 765874002588 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 765874002589 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 765874002590 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 765874002591 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 765874002592 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 765874002593 dimer interface; other site 765874002594 motif 1; other site 765874002595 active site 765874002596 motif 2; other site 765874002597 motif 3; other site 765874002598 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 765874002599 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 765874002600 putative tRNA-binding site; other site 765874002601 B3/4 domain; Region: B3_4; cl11458 765874002602 tRNA synthetase B5 domain; Region: B5; cl08394 765874002603 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 765874002604 dimer interface; other site 765874002605 motif 1; other site 765874002606 motif 3; other site 765874002607 motif 2; other site 765874002608 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 765874002609 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 765874002610 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 765874002611 Semialdehyde dehydrogenase, dimerization domain; Region: Semialdhyde_dhC; pfam02774 765874002612 potential frameshift: common BLAST hit: gi|38233758|ref|NP_939525.1| bifunctional ornithine acetyltransferase/N-acetylglutamate synthase 765874002613 DmpA/OAT superfamily; composed of L-aminopeptidase D-amidase/D-esterase (DmpA), ornithine acetyltransferase (OAT) and similar proteins. DmpA is an aminopeptidase that releases N-terminal D and L amino acids from peptide substrates. This group...; Region: DmpA_OAT; cl00603 765874002614 active site pocket 765874002615 cleavage site 765874002616 DmpA/OAT superfamily; composed of L-aminopeptidase D-amidase/D-esterase (DmpA), ornithine acetyltransferase (OAT) and similar proteins. DmpA is an aminopeptidase that releases N-terminal D and L amino acids from peptide substrates. This group...; Region: DmpA_OAT; cl00603 765874002617 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using...; Region: AAK_NAGK-C; cd04250 765874002618 feedback inhibition sensing region; other site 765874002619 homohexameric interface; other site 765874002620 nucleotide binding site; other site 765874002621 N-acetyl-L-glutamate binding site; other site 765874002622 potential frameshift: common BLAST hit: gi|38233760|ref|NP_939527.1| acetylornithine aminotransferase 765874002623 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 765874002624 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 765874002625 pyridoxal 5'-phosphate binding site; other site 765874002626 catalytic residue; other site 765874002627 ornithine carbamoyltransferase; Provisional; Region: PRK00779 765874002628 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 765874002629 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 765874002630 arginine repressor; Provisional; Region: PRK03341 765874002631 Arginine repressor, DNA binding domain; Region: Arg_repressor; pfam01316 765874002632 Arginine repressor, C-terminal domain; Region: Arg_repressor_C; pfam02863 765874002633 Argininosuccinate synthase [Amino acid transport and metabolism]; Region: ArgG; COG0137 765874002634 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 765874002635 ANP binding site; other site 765874002636 Substrate Binding Site II; other site 765874002637 Substrate Binding Site I; other site 765874002638 argininosuccinate lyase; Provisional; Region: PRK00855 765874002639 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 765874002640 active sites 765874002641 tetramer interface; other site 765874002642 Trm112p-like protein; Region: Trm112p; cl01066 765874002643 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 765874002644 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 765874002645 active site 765874002646 HIGH motif; other site 765874002647 dimer interface; other site 765874002648 KMSKS motif; other site 765874002649 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 765874002650 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 765874002651 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 765874002652 active site 765874002653 motif I; other site 765874002654 motif II; other site 765874002655 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 765874002656 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 765874002657 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 765874002658 RNA binding surface; other site 765874002659 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 765874002660 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 765874002661 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 765874002662 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides...; Region: ABC_RecN; cd03241 765874002663 Walker A/P-loop; other site 765874002664 ATP binding site; other site 765874002665 Q-loop/lid; other site 765874002666 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides...; Region: ABC_RecN; cd03241 765874002667 ABC transporter signature motif; other site 765874002668 Walker B; other site 765874002669 D-loop; other site 765874002670 H-loop/switch region; other site 765874002671 Uncharacterized membrane-anchored protein conserved in bacteria [Function unknown]; Region: COG4825 765874002672 Thiamine pyrophosphokinase; Region: TPK; cl09135 765874002673 Protein of unknown function (DUF3186); Region: DUF3186; pfam11382 765874002674 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as...; Region: ADPRase_NUDT5; cd03424 765874002675 dimer interface; other site 765874002676 ADP-ribose binding site; other site 765874002677 active site 765874002678 nudix motif; other site 765874002679 metal-binding site 765874002680 N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination of chromosomal replication, and stable plasmid...; Region: INT_XerDC; cd00798 765874002681 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 765874002682 Int/Topo IB signature motif; other site 765874002683 active site 765874002684 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 765874002685 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following...; Region: ParA; cd02042 765874002686 P-loop; other site 765874002687 Magnesium ion binding site; other site 765874002688 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following...; Region: ParA; cd02042 765874002689 Magnesium ion binding site; other site 765874002690 ScpA/B protein; Region: ScpA_ScpB; cl00598 765874002691 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras; Region: Ras_like_GTPase; cl10444 765874002692 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 765874002693 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 765874002694 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 765874002695 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK05630 765874002696 inhibitor-cofactor binding pocket; inhibition site 765874002697 pyridoxal 5'-phosphate binding site; other site 765874002698 catalytic residue; other site 765874002699 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras; Region: Ras_like_GTPase; cl10444 765874002700 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras; Region: Ras_like_GTPase; cl10444 765874002701 Putative transcriptional regulators (Ypuh-like); Region: DUF387; cl00612 765874002702 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 765874002703 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 765874002704 RNA binding surface; other site 765874002705 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 765874002706 active site 765874002707 cytidylate kinase; Provisional; Region: cmk; PRK00023 765874002708 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 765874002709 CMP-binding site; other site 765874002710 The sites determining sugar specificity; other site 765874002711 GTP-binding protein EngA; Reviewed; Region: engA; PRK03003 765874002712 EngA1 subfamily. This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA1; cd01894 765874002713 G1 box; other site 765874002714 GTP/Mg2+ binding site; other site 765874002715 Switch I region; other site 765874002716 G2 box; other site 765874002717 Switch II region; other site 765874002718 G3 box; other site 765874002719 G4 box; other site 765874002720 G5 box; other site 765874002721 EngA2 subfamily. This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that...; Region: EngA2; cd01895 765874002722 G1 box; other site 765874002723 GTP/Mg2+ binding site; other site 765874002724 Switch I region; other site 765874002725 G2 box; other site 765874002726 G3 box; other site 765874002727 Switch II region; other site 765874002728 G4 box; other site 765874002729 G5 box; other site 765874002730 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 765874002731 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 765874002732 S-adenosylmethionine binding site; other site 765874002733 Predicted esterase [General function prediction only]; Region: COG0627 765874002734 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 765874002735 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 765874002736 ABC-type Fe3+-citrate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FecB; COG4594 765874002737 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor...; Region: FhuD; cd01146 765874002738 siderophore binding site; other site 765874002739 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist...; Region: TM_ABC_iron-siderophores_like; cd06550 765874002740 dimer interface; other site 765874002741 ABC-ATPase subunit interface; other site 765874002742 putative PBP binding regions; other site 765874002743 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist...; Region: TM_ABC_iron-siderophores_like; cd06550 765874002744 ABC-ATPase subunit interface; other site 765874002745 dimer interface; other site 765874002746 putative PBP binding regions; other site 765874002747 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 765874002748 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 765874002749 Walker A/P-loop; other site 765874002750 ATP binding site; other site 765874002751 Q-loop/lid; other site 765874002752 ABC transporter signature motif; other site 765874002753 Walker B; other site 765874002754 D-loop; other site 765874002755 H-loop/switch region; other site 765874002756 IucA / IucC family; Region: IucA_IucC; pfam04183 765874002757 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 765874002758 IucA / IucC family; Region: IucA_IucC; pfam04183 765874002759 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 765874002760 H+ Antiporter protein; Region: 2A0121; TIGR00900 765874002761 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 765874002762 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 765874002763 preprotein translocase subunit SecA; Reviewed; Region: PRK12326 765874002764 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; cl12029 765874002765 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 765874002766 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 765874002767 nucleotide binding region; other site 765874002768 ATP-binding site; other site 765874002769 SecA Wing and Scaffold domain; Region: SecA_SW; pfam07516 765874002770 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 765874002771 phosphopeptide binding site; other site 765874002772 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 765874002773 DNA binding residues 765874002774 Uncharacterized ACR, COG1259; Region: DUF151; cl00553 765874002775 Helix-Turn-Helix DNA binding domain of GlnR-like transcription regulators; Region: HTH_GlnR-like; cd01105 765874002776 DNA binding residues 765874002777 putative dimer interface; other site 765874002778 Domain of unknown function DUF21; Region: DUF21; pfam01595 765874002779 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 765874002780 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 765874002781 Domain of unknown function DUF21; Region: DUF21; pfam01595 765874002782 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 765874002783 Transporter associated domain; Region: CorC_HlyC; pfam03471 765874002784 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; cl12029 765874002785 ATP-dependent RNA helicase RhlE; Provisional; Region: PRK10590 765874002786 ATP binding site; other site 765874002787 putative Mg++ binding site; other site 765874002788 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 765874002789 nucleotide binding region; other site 765874002790 ATP-binding site; other site 765874002791 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 765874002792 6-phosphogluconate dehydrogenase; Validated; Region: PRK09287 765874002793 6-phosphogluconate dehydrogenase, C-terminal domain; Region: 6PGD; pfam00393 765874002794 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 765874002795 CoenzymeA binding site; other site 765874002796 subunit interaction site; other site 765874002797 PHB binding site; other site 765874002798 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 765874002799 CorA-like Mg2+ transporter protein; Region: CorA; cl00459 765874002800 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 765874002801 S-adenosylmethionine binding site; other site 765874002802 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 765874002803 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 765874002804 cyclopropane fatty acyl phospholipid synthase; Provisional; Region: PRK11705 765874002805 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 765874002806 metabolite-proton symporter; Region: 2A0106; TIGR00883 765874002807 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 765874002808 putative substrate translocation pore; other site 765874002809 YceI-like domain; Region: YceI; cl01001 765874002810 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 765874002811 Ligand binding site; other site 765874002812 Putative Catalytic site; other site 765874002813 DXD motif; other site 765874002814 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 765874002815 putative active site; other site 765874002816 catalytic triad; other site 765874002817 putative dimer interface; other site 765874002818 FxsA cytoplasmic membrane protein; Region: FxsA; cl01148 765874002819 cobaltochelatase subunit CobN; Reviewed; Region: cobN; PRK05989 765874002820 precorrin-3B synthase; Region: CobG; TIGR02435 765874002821 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 765874002822 Precorrin-8X methylmutase; Region: CbiC; cl00913 765874002823 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 765874002824 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 765874002825 Precorrin-6x reductase CbiJ/CobK; Region: CbiJ; cl00922 765874002826 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 765874002827 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 765874002828 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 765874002829 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 765874002830 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 765874002831 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 765874002832 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 765874002833 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 765874002834 active site 765874002835 Superfamily II RNA helicase [DNA replication, recombination, and repair]; Region: COG4581 765874002836 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 765874002837 ATP binding site; other site 765874002838 putative Mg++ binding site; other site 765874002839 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; cl12029 765874002840 DSHCT (NUC185) domain; Region: DSHCT; pfam08148 765874002841 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 765874002842 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 765874002843 Predicted transcriptional regulator [Transcription]; Region: COG2378 765874002844 Predicted transcriptional regulator [Transcription]; Region: COG2378 765874002845 proteasome accessory factor PafA; Region: pupylate_PafA; TIGR03686 765874002846 proteasome accessory factor PafA2; Region: pupylate_PafA2; TIGR03688 765874002847 Pup-like protein; Region: Pup; cl05289 765874002848 proteasome accessory factor PafA2; Region: pupylate_PafA2; TIGR03688 765874002849 Pup-ligase protein; Region: Pup_ligase; pfam03136 765874002850 proteasome ATPase; Region: pup_AAA; TIGR03689 765874002851 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 765874002852 Walker A motif; other site 765874002853 ATP binding site; other site 765874002854 Walker B motif; other site 765874002855 arginine finger; other site 765874002856 tRNA(1-methyladenosine) methyltransferase and related methyltransferases [Translation, ribosomal structure and biogenesis]; Region: GCD14; COG2519 765874002857 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 765874002858 Peptidase dimerization domain; Region: M20_dimer; cl09126 765874002859 Domain of unknown function DUF83; Region: Cas_Cas4; cl00641 765874002860 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 765874002861 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 765874002862 Formyltetrahydrofolate synthetase (FTHFS) catalyzes the ATP-dependent activation of formate ion via its addition to the N10 position of tetrahydrofolate. FTHFS is a highly expressed key enzyme in both the Wood-Ljungdahl pathway of autotrophic CO2...; Region: FTHFS; cd00477 765874002863 Potassium binding sites; other site 765874002864 Cesium cation binding sites; other site 765874002865 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 765874002866 Aspartase; Region: Aspartase; cd01357 765874002867 active sites 765874002868 tetramer interface; other site 765874002869 Anaerobic c4-dicarboxylate membrane transporter; Region: DcuA_DcuB; cl01040 765874002870 ATP phosphoribosyltransferase; Reviewed; Region: hisG; PRK00489 765874002871 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 765874002872 HisG, C-terminal domain; Region: HisG_C; cl06867 765874002873 Phosphoribosyl-ATP pyrophosphohydrolase; Region: PRA-PH; cl00345 765874002874 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 765874002875 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 765874002876 motif II; other site 765874002877 5-methyltetrahydrofolate--homocysteine methyltransferase; Region: metH; TIGR02082 765874002878 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; cl14105 765874002879 MeTr subgroup of pterin binding enzymes. This family includes cobalamin-dependent methyltransferases such as methyltetrahydrofolate, corrinoid iron-sulfur protein methyltransferase (MeTr) and methionine synthase (MetH). Cobalamin-dependent...; Region: MeTr; cd00740 765874002880 substrate binding pocket; other site 765874002881 B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy); Region: methionine_synthase_B12_BD; cd02069 765874002882 B12 binding site; other site 765874002883 cobalt ligand; other site 765874002884 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 765874002885 cysteinyl-tRNA synthetase; Provisional; Region: PRK12418 765874002886 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 765874002887 HIGH motif; other site 765874002888 active site 765874002889 nucleotide binding site; other site 765874002890 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 765874002891 KMSKS motif; other site 765874002892 active site 765874002893 Bacitracin resistance protein BacA; Region: BacA; cl00858 765874002894 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and...; Region: Aldo_ket_red; cd06660 765874002895 active site 765874002896 catalytic tetrad; other site 765874002897 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD...; Region: DHOD_2_like; cd04738 765874002898 quinone interaction residues; other site 765874002899 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 765874002900 active site 765874002901 catalytic residues; other site 765874002902 FMN binding site; other site 765874002903 substrate binding site; other site 765874002904 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 765874002905 substrate binding site; other site 765874002906 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...; Region: PTS_IIA_man; cl00025 765874002907 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 765874002908 dimerization domain swap beta strand; other site 765874002909 regulatory protein interface; other site 765874002910 active site 765874002911 regulatory phosphorylation site; other site 765874002912 DAK2 domain; Region: Dak2; cl03685 765874002913 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 765874002914 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 765874002915 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 765874002916 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 765874002917 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 765874002918 arginine/ornithine transport system ATPase; Provisional; Region: PRK09435 765874002919 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 765874002920 Walker A; other site 765874002921 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras; Region: Ras_like_GTPase; cl10444 765874002922 G4 box; other site 765874002923 G5 box; other site 765874002924 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 765874002925 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily...; Region: MM_CoA_mutase_alpha_like; cd03679 765874002926 active site 765874002927 substrate binding site; other site 765874002928 coenzyme B12 binding site; other site 765874002929 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen...; Region: MM_CoA_mut_B12_BD; cd02071 765874002930 B12 binding site; other site 765874002931 cobalt ligand; other site 765874002932 methylmalonyl-CoA mutase, heterodimeric type, beta chain; Region: mmCoA_mut_beta; TIGR00642 765874002933 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Beta subunit-like subfamily; contains bacterial proteins similar to the beta subunit of MCMs from Propionbacterium shermanni and Streptomyces cinnamonensis, which are alpha/beta...; Region: MM_CoA_mutase_beta; cd03677 765874002934 heterodimer interface; other site 765874002935 substrate interaction site; other site 765874002936 B12 binding domain (B12-BD). Most of the members bind different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide. This domain is found in several enzymes, such as glutamate mutase...; Region: B12-binding_like; cl00293 765874002937 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 765874002938 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 765874002939 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 765874002940 NfeD-like; Region: NfeD; cl00686 765874002941 Protein of unknown function (DUF3097); Region: DUF3097; pfam11296 765874002942 ferrochelatase; Reviewed; Region: hemH; PRK00035 765874002943 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 765874002944 C-terminal domain interface; other site 765874002945 active site 765874002946 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 765874002947 active site 765874002948 N-terminal domain interface; other site 765874002949 chromosome segregation protein; Provisional; Region: PRK02224 765874002950 NlpC/P60 family; Region: NLPC_P60; cl11438 765874002951 acetyl-CoA carboxylase subunit A; Validated; Region: PRK07178 765874002952 aconitate hydratase; Validated; Region: PRK09277 765874002953 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 765874002954 substrate binding site; other site 765874002955 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 765874002956 ligand binding site; other site 765874002957 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 765874002958 substrate binding site; other site 765874002959 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 765874002960 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 765874002961 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 765874002962 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cd03128 765874002963 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 765874002964 catalytic triad; other site 765874002965 conserved cys residue; other site 765874002966 ACT domain proteins similar to the yet uncharacterized Streptococcus pneumoniae ACT domain protein; Region: ACT_1ZPV; cd04872 765874002967 Uncharacterized proteins with similarity to Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL_like_DUF711; cd08025 765874002968 Mitochondrial ribosomal death-associated protein 3; Region: DAP3; pfam10236 765874002969 Archaeal ATPase; Region: Arch_ATPase; pfam01637 765874002970 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 765874002971 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 765874002972 Walker A/P-loop; other site 765874002973 ATP binding site; other site 765874002974 ABC transporter signature motif; other site 765874002975 Walker B; other site 765874002976 D-loop; other site 765874002977 H-loop/switch region; other site 765874002978 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 765874002979 Domain of unknown function DUF59; Region: DUF59; cl00941 765874002980 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 765874002981 trimerization site; other site 765874002982 active site 765874002983 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 765874002984 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 765874002985 pyridoxal 5'-phosphate binding pocket; other site 765874002986 catalytic residue; other site 765874002987 FeS assembly ATPase SufC; Region: sufC; TIGR01978 765874002988 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 765874002989 Walker A/P-loop; other site 765874002990 ATP binding site; other site 765874002991 Q-loop/lid; other site 765874002992 ABC transporter signature motif; other site 765874002993 Walker B; other site 765874002994 D-loop; other site 765874002995 H-loop/switch region; other site 765874002996 FeS assembly protein SufD, group 1; Region: sufD; TIGR01981 765874002997 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 765874002998 FeS assembly protein SufB; Region: sufB; TIGR01980 765874002999 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 765874003000 Predicted transcriptional regulator [Transcription]; Region: COG2345 765874003001 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 765874003002 putative DNA binding site; other site 765874003003 putative Zn2+ binding site; other site 765874003004 carotene biosynthesis associated membrane protein; Region: crt_membr; TIGR03459 765874003005 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 765874003006 The ABCA subfamily mediates the transport of a variety of lipid compounds. Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency...; Region: ABC_subfamily_A; cd03263 765874003007 Walker A/P-loop; other site 765874003008 ATP binding site; other site 765874003009 Q-loop/lid; other site 765874003010 ABC transporter signature motif; other site 765874003011 Walker B; other site 765874003012 D-loop; other site 765874003013 H-loop/switch region; other site 765874003014 ABC-2 type transporter; Region: ABC2_membrane; cl11417 765874003015 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 765874003016 Cytochrome oxidase assembly protein; Region: COX15-CtaA; cl00696 765874003017 UbiA prenyltransferase family; Region: UbiA; cl00337 765874003018 transketolase; Reviewed; Region: PRK05899 765874003019 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 765874003020 TPP-binding site; other site 765874003021 dimer interface; other site 765874003022 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 765874003023 PYR/PP interface; other site 765874003024 dimer interface; other site 765874003025 TPP binding site; other site 765874003026 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 765874003027 Transaldolase-like proteins from plants and bacteria. Transaldolase is found in the non-oxidative branch of the pentose phosphate pathway, that catalyze the reversible transfer of a dihydroxyacetone group from fructose-6-phosphate to erythrose-4-...; Region: Transaldolase_like; cd00955 765874003028 putative active site; other site 765874003029 catalytic residue; other site 765874003030 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 765874003031 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 765874003032 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 765874003033 opcA protein; Region: OpcA; TIGR00534 765874003034 Glucose-6-phosphate dehydrogenase subunit; Region: OpcA_G6PD_assem; cl01359 765874003035 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 765874003036 putative active site; other site 765874003037 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 765874003038 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 765874003039 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 765874003040 substrate binding site; other site 765874003041 dimer interface; other site 765874003042 catalytic triad; other site 765874003043 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 765874003044 substrate binding site; other site 765874003045 hinge regions; other site 765874003046 ADP binding site; other site 765874003047 catalytic site; other site 765874003048 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; cl12058 765874003049 glyceraldehyde-3-phosphate dehydrogenase, type I; Region: GAPDH-I; TIGR01534 765874003050 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 765874003051 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1481 765874003052 Sporulation Regulator WhiA N terminal; Region: WhiA_N; pfam10298 765874003053 family of mostly uncharacterized proteins similar to B.subtilis YvcK; Region: YvcK_like; cd07187 765874003054 Uncharacterized protein family UPF0052; Region: UPF0052; pfam01933 765874003055 phosphate binding site; other site 765874003056 putative substrate binding pocket; other site 765874003057 dimer interface; other site 765874003058 P-loop ATPase protein family; Region: ATP_bind_2; cl10035 765874003059 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 765874003060 GIY-YIG catalytic domain; Region: GIY-YIG; cl01061 765874003061 UvrB/uvrC motif; Region: UVR; pfam02151 765874003062 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 765874003063 Protein of unknown function (DUF2581); Region: DUF2581; pfam10756 765874003064 6,7-dimethyl-8-ribityllumazine synthase; Region: DMRL_synthase; cl00317 765874003065 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II protein; Provisional; Region: PRK09311 765874003066 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 765874003067 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 765874003068 dimerization interface; other site 765874003069 active site 765874003070 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 765874003071 Lumazine binding domain; Region: Lum_binding; pfam00677 765874003072 Lumazine binding domain; Region: Lum_binding; pfam00677 765874003073 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 765874003074 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 765874003075 catalytic motif; other site 765874003076 Zn binding site; other site 765874003077 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5,10-...; Region: DHFR; cl00161 765874003078 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative...; Region: RPE; cd00429 765874003079 substrate binding site; other site 765874003080 hexamer interface; other site 765874003081 metal-binding site 765874003082 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the rRNA-...; Region: NusB_Sun; cl00223 765874003083 putative RNA binding site; other site 765874003084 tRNA and rRNA cytosine-C5-methylases [Translation, ribosomal structure and biogenesis]; Region: Sun; COG0144 765874003085 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 765874003086 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 765874003087 Formyl transferase; Region: Formyl_trans_N; cl00395 765874003088 Formyl transferase, C-terminal domain; Region: Formyl_trans_C; pfam02911 765874003089 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(...; Region: Pep_deformylase; cd00487 765874003090 active site 765874003091 catalytic residues; other site 765874003092 metal-binding site 765874003093 primosome assembly protein PriA; Validated; Region: PRK05580 765874003094 S-adenosylmethionine synthetase; Validated; Region: PRK05250 765874003095 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 765874003096 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 765874003097 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 765874003098 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 765874003099 Flavoprotein; Region: Flavoprotein; cl08021 765874003100 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 765874003101 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl00765 765874003102 Adenylate kinase and related kinases [Nucleotide transport and metabolism]; Region: Adk; COG0563 765874003103 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and...; Region: GMPK; cd00071 765874003104 catalytic site; other site 765874003105 G-X2-G-X-G-K; other site 765874003106 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 765874003107 active site 765874003108 dimer interface; other site 765874003109 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 765874003110 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 765874003111 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 765874003112 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 765874003113 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 765874003114 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 765874003115 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 765874003116 IMP binding site; other site 765874003117 dimer interface; other site 765874003118 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 765874003119 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 765874003120 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 765874003121 catalytic site; other site 765874003122 subunit interface; other site 765874003123 dihydroorotase; Validated; Region: pyrC; PRK09357 765874003124 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have...; Region: metallo-dependent_hydrolases; cl00281 765874003125 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 765874003126 active site 765874003127 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 765874003128 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 765874003129 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 765874003130 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 765874003131 Polyketide cyclase / dehydrase and lipid transport; Region: Polyketide_cyc2; cl10449 765874003132 conserved hypothetical protein TIGR01777; Region: yfcH 765874003133 Domain of unknown function (DUF1731); Region: DUF1731; pfam08338 765874003134 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the rRNA-...; Region: NusB_Sun; cl00223 765874003135 putative RNA binding site; other site 765874003136 elongation factor P; Validated; Region: PRK00529 765874003137 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 765874003138 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with N-formylmethionyl-...; Region: S1_EF-P_repeat_1; cd04470 765874003139 RNA binding site; other site 765874003140 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with N-formylmethionyl-...; Region: S1_EF-P_repeat_2; cd05794 765874003141 RNA binding site; other site 765874003142 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 765874003143 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 765874003144 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 765874003145 active site 765874003146 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 765874003147 trimer interface; other site 765874003148 active site 765874003149 dimer interface; other site 765874003150 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 765874003151 active site 765874003152 dimer interface; other site 765874003153 metal-binding site 765874003154 shikimate kinase; Reviewed; Region: aroK; PRK00131 765874003155 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the...; Region: SK; cd00464 765874003156 ADP binding site; other site 765874003157 magnesium binding site; other site 765874003158 putative shikimate binding site; other site 765874003159 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 765874003160 Tetramer interface; other site 765874003161 active site 765874003162 FMN-binding site; other site 765874003163 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 765874003164 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 765874003165 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 765874003166 shikimate binding site; other site 765874003167 NAD(P) binding site; other site 765874003168 YceG-like family; Region: YceG; pfam02618 765874003169 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 765874003170 dimerization interface; other site 765874003171 Uncharacterized protein family (UPF0081); Region: UPF0081; cl00525 765874003172 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 765874003173 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation...; Region: AlaRS_core; cd00673 765874003174 motif 1; other site 765874003175 active site 765874003176 motif 2; other site 765874003177 motif 3; other site 765874003178 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 765874003179 DHHA1 domain; Region: DHHA1; pfam02272 765874003180 recombination factor protein RarA; Reviewed; Region: PRK13342 765874003181 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 765874003182 Walker A motif; other site 765874003183 ATP binding site; other site 765874003184 Walker B motif; other site 765874003185 MgsA AAA+ ATPase C terminal; Region: MgsA_C; cl13440 765874003186 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 765874003187 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 765874003188 EcAspRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli aspartyl-tRNA synthetase (AspRS), the human mitochondrial (mt) AspRS-2, the discriminating (D) Thermus thermophilus AspRS-1, and the nondiscriminating (ND)...; Region: EcAspRS_like_N; cd04317 765874003189 dimer interface; other site 765874003190 anticodon binding site; other site 765874003191 Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the...; Region: AspRS_core; cd00777 765874003192 homodimer interface; other site 765874003193 motif 1; other site 765874003194 active site 765874003195 motif 2; other site 765874003196 GAD domain; Region: GAD; pfam02938 765874003197 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 765874003198 active site 765874003199 motif 3; other site 765874003200 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; cl00988 765874003201 DEAD-like helicases superfamily; Region: DEXDc; smart00487 765874003202 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 765874003203 ATP binding site; other site 765874003204 putative Mg++ binding site; other site 765874003205 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 765874003206 nucleotide binding region; other site 765874003207 ATP-binding site; other site 765874003208 Predicted membrane protein [Function unknown]; Region: COG1511 765874003209 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 765874003210 ABC-2 type transporter; Region: ABC2_membrane; cl11417 765874003211 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 765874003212 ATP binding site; other site 765874003213 Q-loop/lid; other site 765874003214 ABC transporter signature motif; other site 765874003215 Walker B; other site 765874003216 D-loop; other site 765874003217 H-loop/switch region; other site 765874003218 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 765874003219 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 765874003220 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 765874003221 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 765874003222 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 765874003223 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 765874003224 Malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate cycle, which allows certain organisms, like plants and fungi, to derive their...; Region: malate_synt; cl09155 765874003225 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 765874003226 putative active site; other site 765874003227 putative catalytic site; other site 765874003228 CoA-transferase family III; Region: CoA_transf_3; cl00778 765874003229 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 765874003230 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 765874003231 dimer interface; other site 765874003232 motif 1; other site 765874003233 active site 765874003234 motif 2; other site 765874003235 motif 3; other site 765874003236 HisRS Histidyl-anticodon binding domain. HisRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding, so that the activated amino acid is...; Region: HisRS_anticodon; cd00859 765874003237 anticodon binding site; other site 765874003238 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 765874003239 Peroxiredoxin (PRX) family, Atypical 2-cys PRX subfamily; composed of PRXs containing peroxidatic and resolving cysteines, similar to the homodimeric thiol specific antioxidant (TSA) protein also known as TRX-dependent thiol peroxidase (Tpx). Tpx is a...; Region: PRX_Atyp2cys; cd03014 765874003240 dimer interface; other site 765874003241 catalytic triad; other site 765874003242 peroxidatic and resolving cysteines; other site 765874003243 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 765874003244 active site 765874003245 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 765874003246 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 765874003247 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 765874003248 synthetase active site; other site 765874003249 NTP binding site; other site 765874003250 metal-binding site 765874003251 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named...; Region: TGS_RelA_SpoT; cd01668 765874003252 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 765874003253 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 765874003254 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 765874003255 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 765874003256 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 765874003257 Protein export membrane protein; Region: SecD_SecF; cl14618 765874003258 Preprotein translocase subunit SecD [Intracellular trafficking and secretion]; Region: SecD; COG0342 765874003259 Protein export membrane protein; Region: SecD_SecF; cl14618 765874003260 Preprotein translocase subunit; Region: YajC; cl00806 765874003261 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 765874003262 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 765874003263 Walker A motif; other site 765874003264 ATP binding site; other site 765874003265 Walker B motif; other site 765874003266 arginine finger; other site 765874003267 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 765874003268 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 765874003269 RuvA N terminal domain; Region: RuvA_N; pfam01330 765874003270 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 765874003271 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 765874003272 active site 765874003273 putative DNA-binding cleft; other site 765874003274 dimer interface; other site 765874003275 Domain of unknown function DUF28; Region: DUF28; cl00361 765874003276 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 765874003277 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 765874003278 active site 765874003279 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 765874003280 catalytic triad; other site 765874003281 dimer interface; other site 765874003282 6-carboxyhexanoate--CoA ligase; Region: BioW; cl00625 765874003283 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 765874003284 pyridoxal 5'-phosphate binding pocket; other site 765874003285 catalytic residue; other site 765874003286 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 765874003287 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 765874003288 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 765874003289 putative acyl-acceptor binding pocket; other site 765874003290 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 765874003291 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 765874003292 nucleotide binding site/active site; other site 765874003293 HIT family signature motif; other site 765874003294 catalytic residue; other site 765874003295 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 765874003296 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 765874003297 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 765874003298 active site 765874003299 dimer interface; other site 765874003300 motif 1; other site 765874003301 motif 2; other site 765874003302 motif 3; other site 765874003303 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 765874003304 anticodon binding site; other site 765874003305 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 765874003306 Protein of unknown function (DUF461); Region: DUF461; cl01071 765874003307 Copper resistance protein CopC; Region: CopC; cl01012 765874003308 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5,10-...; Region: DHFR; cl00161 765874003309 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 765874003310 SelR domain; Region: SelR; cl00369 765874003311 Chlorite dismutase; Region: Chlor_dismutase; cl01280 765874003312 Protein of unknown function (DUF3000); Region: DUF3000; pfam11452 765874003313 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 765874003314 putative active site; other site 765874003315 catalytic site; other site 765874003316 putative substrate binding site; other site 765874003317 HRDC domain; Region: HRDC; cl02578 765874003318 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 765874003319 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 with important pharmaceutical activity. DXS...; Region: TPP_DXS; cd02007 765874003320 TPP-binding site; other site 765874003321 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 765874003322 PYR/PP interface; other site 765874003323 dimer interface; other site 765874003324 TPP binding site; other site 765874003325 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 765874003326 TRAM domain; Region: TRAM; cl01282 765874003327 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 765874003328 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 765874003329 Protein of unknown function (DUF3159); Region: DUF3159; pfam11361 765874003330 Protein of unknown function (DUF3710); Region: DUF3710; pfam12502 765874003331 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 765874003332 trimer interface; other site 765874003333 active site 765874003334 Protein of unknown function (DUF3093); Region: DUF3093; pfam11292 765874003335 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 765874003336 active site 765874003337 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 765874003338 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 765874003339 ROK family; Region: ROK; cl09121 765874003340 RNA polymerase sigma factor SigB; Reviewed; Region: PRK07921 765874003341 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 765874003342 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 765874003343 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 765874003344 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial...; Region: Sigma70_r4; cd06171 765874003345 DNA binding residues 765874003346 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 765874003347 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 765874003348 ATP binding site; other site 765874003349 putative Mg++ binding site; other site 765874003350 Protein of unknown function (DUF3039); Region: DUF3039; pfam11238 765874003351 Protein of unknown function (DUF3099); Region: DUF3099; pfam11298 765874003352 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 765874003353 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 765874003354 S-adenosylmethionine binding site; other site 765874003355 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but...; Region: Dtyr_deacylase; cd00563 765874003356 putative active site; other site 765874003357 dimerization interface; other site 765874003358 putative tRNAtyr binding site; other site 765874003359 RNA polymerase sigma factor SigB; Reviewed; Region: PRK07921 765874003360 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 765874003361 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 765874003362 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 765874003363 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial...; Region: Sigma70_r4; cl01055 765874003364 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 765874003365 Helix-turn-helix diphteria tox regulatory element; Region: HTH_DTXR; smart00529 765874003366 Iron dependent repressor, metal binding and dimerization domain; Region: Fe_dep_repr_C; pfam02742 765874003367 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 765874003368 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 765874003369 PAC2 family; Region: PAC2; cl00847 765874003370 potential frameshift: common BLAST hit: gi|38234003|ref|NP_939770.1| putative helicase 765874003371 DEAD-like helicases superfamily; Region: DEXDc; smart00487 765874003372 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 765874003373 ATP binding site; other site 765874003374 putative Mg++ binding site; other site 765874003375 Superfamily II RNA helicase [DNA replication, recombination, and repair]; Region: COG4581 765874003376 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 765874003377 nucleotide binding region; other site 765874003378 ATP-binding site; other site 765874003379 Domain of unknown function (DUF3516); Region: DUF3516; pfam12029 765874003380 Domain of unknown function (DUF3516); Region: DUF3516; pfam12029 765874003381 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 765874003382 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic...; Region: PRX_Typ2cys; cd03015 765874003383 decamer (pentamer of dimers) interface; other site 765874003384 catalytic triad; other site 765874003385 dimer interface; other site 765874003386 peroxidatic and resolving cysteines; other site 765874003387 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 765874003388 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 765874003389 The C-terminal substrate-binding domain of the LysR-type transcriptional regulator OxyR, a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_OxyR; cd08411 765874003390 dimerization interface; other site 765874003391 Predicted integral membrane protein (DUF2189); Region: DUF2189; cl02291 765874003392 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 765874003393 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 765874003394 ATP binding site; other site 765874003395 putative Mg++ binding site; other site 765874003396 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; cl12029 765874003397 Helicase associated domain (HA2); Region: HA2; cl04503 765874003398 Domain of unknown function (DUF1605); Region: DUF1605; pfam07717 765874003399 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 765874003400 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 765874003401 ATP cone domain; Region: ATP-cone; pfam03477 765874003402 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 765874003403 LexA repressor; Validated; Region: PRK00215 765874003404 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (...; Region: S24_LexA-like; cd06529 765874003405 Catalytic site; other site 765874003406 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 765874003407 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 765874003408 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 765874003409 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 765874003410 PEP-utilising enzyme, N-terminal; Region: PEP-utilizers_N; pfam05524 765874003411 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; cl01586 765874003412 Malate synthase catalyzes the Claisen condensation of glyoxylate and acetyl-CoA to malyl-CoA , which hydrolyzes to malate and CoA. This reaction is part of the glyoxylate cycle, which allows certain organisms, like plants and fungi, to derive their...; Region: malate_synt; cl09155 765874003413 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 765874003414 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 765874003415 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 765874003416 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 765874003417 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 765874003418 putative substrate binding site; other site 765874003419 putative ATP binding site; other site 765874003420 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 765874003421 active site 765874003422 phosphorylation site 765874003423 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...; Region: PTS_IIB_fructose; cd05569 765874003424 P-loop; other site 765874003425 active site 765874003426 phosphorylation site 765874003427 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 765874003428 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 765874003429 dimerization domain swap beta strand; other site 765874003430 regulatory protein interface; other site 765874003431 active site 765874003432 regulatory phosphorylation site; other site 765874003433 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 765874003434 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 765874003435 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 765874003436 Permease family; Region: Xan_ur_permease; cl00967 765874003437 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 765874003438 HflX subfamily. A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual...; Region: HflX; cd01878 765874003439 G1 box; other site 765874003440 GTP/Mg2+ binding site; other site 765874003441 Switch I region; other site 765874003442 G2 box; other site 765874003443 G3 box; other site 765874003444 Switch II region; other site 765874003445 ribosome-associated GTPase; Reviewed; Region: PRK12288 765874003446 G4 box; other site 765874003447 G5 box; other site 765874003448 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 765874003449 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 765874003450 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 765874003451 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 765874003452 IPP transferase; Region: IPPT; cl00403 765874003453 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 765874003454 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 765874003455 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 765874003456 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 765874003457 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14326 765874003458 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 765874003459 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 765874003460 FeS/SAM binding site; other site 765874003461 RecX family; Region: RecX; cl00936 765874003462 recombinase A; Provisional; Region: recA; PRK09354 765874003463 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 765874003464 hexamer interface; other site 765874003465 Walker A motif; other site 765874003466 ATP binding site; other site 765874003467 Walker B motif; other site 765874003468 Protein of unknown function (DUF3046); Region: DUF3046; pfam11248 765874003469 BioY family; Region: BioY; cl00560 765874003470 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 765874003471 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota. The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This...; Region: ABC_cobalt_CbiO_domain1; cd03225 765874003472 Walker A/P-loop; other site 765874003473 ATP binding site; other site 765874003474 Q-loop/lid; other site 765874003475 ABC transporter signature motif; other site 765874003476 Walker B; other site 765874003477 D-loop; other site 765874003478 H-loop/switch region; other site 765874003479 Cobalt transport protein; Region: CbiQ; cl00463 765874003480 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 765874003481 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 765874003482 Competence-damaged protein; Region: CinA; cl00666 765874003483 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 765874003484 YCII-related domain; Region: YCII; cl00999 765874003485 Integral membrane protein TerC family; Region: TerC; cl10468 765874003486 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 765874003487 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 765874003488 conserved hypothetical protein TIGR03085; Region: TIGR03085 765874003489 mRNA degradation ribonucleases J1/J2 (metallo-beta-lactamase superfamily) [Translation, ribosomal structure and biogenesis; Replication, recombination and repair]; Region: COG0595 765874003490 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 765874003491 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 765874003492 Dihydrodipicolinate synthase (DHDPS) is a key enzyme in lysine biosynthesis. It catalyzes the aldol condensation of L-aspartate-beta- semialdehyde and pyruvate to dihydropicolinic acid via a Schiff base formation between pyruvate and a lysine residue...; Region: DHDPS; cd00950 765874003493 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 765874003494 dimer interface; other site 765874003495 active site 765874003496 catalytic residue; other site 765874003497 Thymidylate synthase complementing protein; Region: Thy1; cl03630 765874003498 dihydrodipicolinate reductase; Provisional; Region: PRK00048 765874003499 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 765874003500 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 765874003501 guanosine pentaphosphate synthetase I/polynucleotide phosphorylase; Region: pppGpp_PNP; TIGR02696 765874003502 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 765874003503 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 765874003504 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 765874003505 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 765874003506 putative nucleic acid binding region; other site 765874003507 G-X-X-G motif; other site 765874003508 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 765874003509 RNA binding site; other site 765874003510 domain interface; other site 765874003511 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole...; Region: Ribosomal_S15p_S13e; cd00353 765874003512 16S/18S rRNA binding site; other site 765874003513 S13e-L30e interaction site; other site 765874003514 25S rRNA binding site; other site 765874003515 Inosine-uridine preferring nucleoside hydrolase; Region: IU_nuc_hydro; pfam01156 765874003516 NH_hydro_CaPnhB: A subgroup of nucleoside hydrolases similar to Corynebacterium ammoniagenes Purine/pyrimidine nucleoside hydrolase (pnhB). Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the respective base...; Region: nuc_hydro_CaPnhB; cd02650 765874003517 active site 765874003518 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 765874003519 riboflavin kinase, C-terminal domain of the bifunctional riboflavin biosynthesis protein; Region: Flavokinase_C; cd02064 765874003520 active site 765874003521 Riboflavin kinase; Region: Flavokinase; pfam01687 765874003522 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK03287 765874003523 PseudoU_synth_EcTruB: Pseudouridine synthase, Escherichia coli TruB like. This group consists of bacterial pseudouridine synthases similar to E. coli TruB and Mycobacterium tuberculosis TruB. Pseudouridine synthases catalyze the isomerization of...; Region: PseudoU_synth_EcTruB; cd02573 765874003524 RNA binding site; other site 765874003525 active site 765874003526 Phosphopantetheinyl transferase component of siderophore synthetase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntD; COG2977 765874003527 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 765874003528 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 765874003529 active site 765874003530 metal-binding site 765874003531 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 765874003532 MatE; Region: MatE; pfam01554 765874003533 MatE; Region: MatE; pfam01554 765874003534 DHH family; Region: DHH; pfam01368 765874003535 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 765874003536 Ribosome-binding factor A; Region: RBFA; cl00542 765874003537 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 765874003538 translation initiation factor IF-2; Provisional; Region: infB; PRK12312 765874003539 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 765874003540 IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily. IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases...; Region: IF2_eIF5B; cd01887 765874003541 G1 box; other site 765874003542 putative GEF interaction site; other site 765874003543 GTP/Mg2+ binding site; other site 765874003544 Switch I region; other site 765874003545 G2 box; other site 765874003546 G3 box; other site 765874003547 Switch II region; other site 765874003548 G4 box; other site 765874003549 G5 box; other site 765874003550 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the...; Region: IF2_mtIF2_II; cd03702 765874003551 Translation-initiation factor 2; Region: IF-2; pfam11987 765874003552 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation...; Region: mtIF2_IVc; cd03692 765874003553 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 765874003554 putative RNA binding cleft; other site 765874003555 transcription elongation factor NusA; Provisional; Region: nusA; PRK12327 765874003556 NusA N-terminal domain; Region: NusA_N; pfam08529 765874003557 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and...; Region: S1_NusA; cd04455 765874003558 RNA binding site; other site 765874003559 homodimer interface; other site 765874003560 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 765874003561 G-X-X-G motif; other site 765874003562 hypothetical protein; Reviewed; Region: PRK00092 765874003563 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members...; Region: Sm_like; cl00259 765874003564 prolyl-tRNA synthetase; Provisional; Region: PRK09194 765874003565 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation...; Region: ProRS_core_prok; cd00779 765874003566 dimer interface; other site 765874003567 motif 1; other site 765874003568 active site 765874003569 motif 2; other site 765874003570 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 single-...; Region: ProRS-INS; cd04334 765874003571 putative deacylase active site; other site 765874003572 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 765874003573 active site 765874003574 motif 3; other site 765874003575 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-...; Region: ProRS_anticodon_short; cd00861 765874003576 anticodon binding site; other site 765874003577 Protein of unknown function (DUF328); Region: DUF328; cl01143 765874003578 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; cl00304 765874003579 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; cl00428 765874003580 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 765874003581 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras; Region: Ras_like_GTPase; cl10444 765874003582 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; cl08458 765874003583 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 765874003584 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 765874003585 DNA binding site 765874003586 active site 765874003587 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 765874003588 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras; Region: Ras_like_GTPase; cl10444 765874003589 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 765874003590 catalytic triad; other site 765874003591 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 765874003592 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a...; Region: CobA_CobO_BtuR; cd00561 765874003593 homodimer interface; other site 765874003594 Walker A motif; other site 765874003595 ATP binding site; other site 765874003596 hydroxycobalamin binding site; other site 765874003597 Walker B motif; other site 765874003598 Mg-chelatase subunit ChlD [Coenzyme metabolism]; Region: ChlD; COG1240 765874003599 Magnesium chelatase: Mg-chelatase catalyses the insertion of Mg into protoporphyrin IX (Proto). In chlorophyll biosynthesis, insertion of Mg2+ into protoporphyrin IX is catalysed by magnesium chelatase in an ATP-dependent reaction. Magnesium chelatase...; Region: vWA_Magnesium_chelatase; cd01451 765874003600 metal ion-dependent adhesion site (MIDAS); other site 765874003601 cobaltochelatase subunit; Region: Cob-chelat-sub; TIGR02442 765874003602 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 765874003603 Walker A motif; other site 765874003604 ATP binding site; other site 765874003605 Walker B motif; other site 765874003606 arginine finger; other site 765874003607 Predicted dehydrogenase [General function prediction only]; Region: COG0579 765874003608 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 765874003609 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 765874003610 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 765874003611 mycothione reductase; Reviewed; Region: PRK07846 765874003612 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 765874003613 Pyridine nucleotide-disulphide oxidoreductase, dimerization domain; Region: Pyr_redox_dim; pfam02852 765874003614 cobyric acid synthase; Provisional; Region: PRK00784 765874003615 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras; Region: Ras_like_GTPase; cl10444 765874003616 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 765874003617 catalytic triad; other site 765874003618 methionine aminopeptidase; Provisional; Region: PRK12318 765874003619 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 765874003620 active site 765874003621 NTF2-like N-terminal transpeptidase domain; Region: MecA_N; pfam05223 765874003622 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 765874003623 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 765874003624 1-hydroxy-2-methyl-2-(E)-butenyl 4-diphosphate synthase; Region: ispG_gcpE; TIGR00612 765874003625 Predicted membrane-associated Zn-dependent proteases 1 [Cell envelope biogenesis, outer membrane]; Region: COG0750 765874003626 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 765874003627 active site 765874003628 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most...; Region: PDZ_metalloprotease; cd00989 765874003629 protein binding site; other site 765874003630 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 765874003631 putative substrate binding region; other site 765874003632 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 765874003633 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 765874003634 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 765874003635 Protein of unknown function (DUF2631); Region: DUF2631; pfam10939 765874003636 potential frameshift: common BLAST hit: gi|38234081|ref|NP_939848.1| ribosomal RNA large subunit methyltransferase N 765874003637 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; cl14056 765874003638 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; cl14056 765874003639 Protein of unknown function (DUF1049); Region: DUF1049; cl01539 765874003640 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 765874003641 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 765874003642 hinge region; other site 765874003643 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control...; Region: AAK_UMPK-PyrH-Ec; cd04254 765874003644 putative nucleotide binding site; other site 765874003645 uridine monophosphate binding site; other site 765874003646 homohexameric interface; other site 765874003647 elongation factor Ts; Provisional; Region: tsf; PRK09377 765874003648 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 765874003649 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 765874003650 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 765874003651 rRNA interaction site; other site 765874003652 S8 interaction site; other site 765874003653 putative laminin-1 binding site; other site 765874003654 Peptidase family M23; Region: Peptidase_M23; pfam01551 765874003655 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 765874003656 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 765874003657 DNA binding site 765874003658 Int/Topo IB signature motif; other site 765874003659 active site 765874003660 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 765874003661 DNA recombination-mediator protein A; Region: DNA_processg_A; cl00695 765874003662 Uncharacterized protein family UPF0102; Region: UPF0102; cl00516 765874003663 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 765874003664 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 765874003665 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 765874003666 Protein of unknown function (DUF2469); Region: DUF2469; pfam10611 765874003667 bacterial Ribonuclease HII-like; Region: RNaseH_typeII_bacteria_HII_like; cd07182 765874003668 active site 765874003669 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 765874003670 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 765874003671 Catalytic site; other site 765874003672 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 765874003673 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 765874003674 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 765874003675 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 765874003676 Uncharacterized protein family (UPF0081); Region: UPF0081; cl00525 765874003677 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cl11430 765874003678 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 765874003679 RNA binding site; other site 765874003680 putative PTS transporter components IIBC; Provisional; Region: PRK11404 765874003681 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...; Region: PTS_IIB_fructose; cd05569 765874003682 P-loop; other site 765874003683 active site 765874003684 phosphorylation site 765874003685 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 765874003686 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 765874003687 active site 765874003688 phosphorylation site 765874003689 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 765874003690 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 765874003691 RimM N-terminal domain; Region: RimM; pfam01782 765874003692 Photosynthetic reaction center (RC) complex, subunit H; RC is an integral membrane protein-pigment complex which catalyzes light-induced reduction of ubiquinone to ubiquinol, generating a transmembrane electrochemical gradient of protons used to...; Region: PRCH; cl09959 765874003693 Cupin domain; Region: Cupin_2; cl09118 765874003694 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 765874003695 signal recognition particle protein; Region: ffh; TIGR00959 765874003696 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 765874003697 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 765874003698 P loop; other site 765874003699 GTP binding site; other site 765874003700 Signal peptide binding domain; Region: SRP_SPB; pfam02978 765874003701 PII uridylyl-transferase; Provisional; Region: glnD; PRK00227 765874003702 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 765874003703 metal binding triad; other site 765874003704 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 765874003705 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 765874003706 Nitrogen regulatory protein P-II; Region: P-II; cl00412 765874003707 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 765874003708 signal recognition particle-docking protein FtsY; Region: ftsY; TIGR00064 765874003709 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras; Region: Ras_like_GTPase; cl10444 765874003710 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 765874003711 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 765874003712 Walker A/P-loop; other site 765874003713 ATP binding site; other site 765874003714 SMC proteins Flexible Hinge Domain; Region: SMC_hinge; pfam06470 765874003715 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 765874003716 ABC transporter signature motif; other site 765874003717 Walker B; other site 765874003718 D-loop; other site 765874003719 H-loop/switch region; other site 765874003720 Acylphosphatase; Region: Acylphosphatase; cl00551 765874003721 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 765874003722 formamidopyrimidine-DNA glycosylase; Validated; Region: PRK01103 765874003723 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 765874003724 DNA binding site 765874003725 catalytic residue; other site 765874003726 H2TH interface; other site 765874003727 putative catalytic residues; other site 765874003728 turnover-facilitating residue; other site 765874003729 intercalation triad; other site 765874003730 8OG recognition residue; other site 765874003731 putative reading head residues; other site 765874003732 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 765874003733 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 765874003734 ribonuclease III; Reviewed; Region: rnc; PRK00102 765874003735 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in post-...; Region: RIBOc; cd00593 765874003736 dimerization interface; other site 765874003737 active site 765874003738 metal-binding site 765874003739 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase...; Region: DSRM; cd00048 765874003740 dsRNA binding site; other site 765874003741 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 765874003742 Cell division initiation protein [Cell division and chromosome partitioning]; Region: DivIVA; COG3599 765874003743 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 765874003744 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5,10-...; Region: DHFR; cl00161 765874003745 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 765874003746 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; pfam05222 765874003747 glutamate dehydrogenase; Provisional; Region: PRK09414 765874003748 Glu/Leu/Phe/Val dehydrogenase, dimerization domain; Region: ELFV_dehydrog_N; pfam02812 765874003749 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 765874003750 NAD(P) binding site; other site 765874003751 Glycerate kinase family; Region: Gly_kinase; cl00841 765874003752 Galactose-1-phosphate uridylyltransferase [Energy production and conversion]; Region: GalT; COG1085 765874003753 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the...; Region: HIT_like; cl00228 765874003754 nucleotide binding site/active site; other site 765874003755 HIT family signature motif; other site 765874003756 catalytic residue; other site 765874003757 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 765874003758 Peptidase dimerization domain; Region: M20_dimer; cl09126 765874003759 This is a family of oligosaccharide phosphorylases. It includes yeast and mammalian glycogen phosphorylases, plant starch/glucan phosphorylase, as well as the maltodextrin phosphorylases of bacteria. The members of this family catalyze the breakdown of...; Region: GT1_Glycogen_Phosphorylase; cd04300 765874003760 homodimer interface; other site 765874003761 glycogen/starch/alpha-glucan phosphorylases; Region: P_ylase; TIGR02093 765874003762 active site pocket 765874003763 Electron transfer DM13; Region: DM13; cl02735 765874003764 pyruvate kinase; Provisional; Region: PRK06247 765874003765 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; cl10032 765874003766 domain interfaces; other site 765874003767 active site 765874003768 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 765874003769 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 765874003770 active site 765874003771 ribulose/triose binding site; other site 765874003772 phosphate binding site; other site 765874003773 substrate (anthranilate) binding pocket; other site 765874003774 product (indole) binding pocket; other site 765874003775 Tryptophan-associated transmembrane protein (Trp_oprn_chp); Region: Trp_oprn_chp; cl09759 765874003776 Phosphoribosyl-AMP cyclohydrolase; Region: PRA-CH; cl00344 765874003777 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)-formimino-5-; Region: HisF; cd04731 765874003778 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 765874003779 substrate binding site; other site 765874003780 glutamase interaction surface; other site 765874003781 Inositol-monophosphatase-like domains. This family of phosphatases is dependent on bivalent metal ions such as Mg++, and many members are inhibited by Li+ (which is thought to displace a bivalent ion in the active site). Substrates include fructose-1,6-; Region: IMPase_like; cd01637 765874003782 active site 765874003783 Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase [Amino acid transport and metabolism]; Region: HisA; COG0106 765874003784 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 765874003785 catalytic residues; other site 765874003786 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 765874003787 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 765874003788 putative active site; other site 765874003789 oxyanion strand; other site 765874003790 catalytic triad; other site 765874003791 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 765874003792 Major Facilitator Superfamily; Region: MFS_1; pfam07690 765874003793 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 765874003794 putative active site pocket; other site 765874003795 4-fold oligomerization interface; other site 765874003796 metal binding residues; metal-binding site 765874003797 3-fold/trimer interface; other site 765874003798 histidinol-phosphate aminotransferase; Validated; Region: PRK00950 765874003799 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 765874003800 pyridoxal 5'-phosphate binding site; other site 765874003801 homodimer interface; other site 765874003802 catalytic residue; other site 765874003803 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 765874003804 E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent oxidation of L-histidinol to L-...; Region: Histidinol_dh; cd06572 765874003805 NAD binding site; other site 765874003806 dimerization interface; other site 765874003807 product binding site; other site 765874003808 substrate binding site; other site 765874003809 zinc binding site; other site 765874003810 catalytic residues; other site 765874003811 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 765874003812 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 765874003813 glycogen debranching enzyme GlgX; Region: glgX_debranch; TIGR02100 765874003814 Glycogen_debranching_enzyme N-terminal domain. Glycogen debranching enzymes have both 4-alpha-glucanotransferase and amylo-1,6-glucosidase activities. As a transferase it transfers a segment of a 1,4-alpha-D-glucan to a new 4-position in an acceptor...; Region: Glycogen_debranching_enzyme_N_term; cd02856 765874003815 Alpha amylase, catalytic domain; Region: Alpha-amylase; cl07893 765874003816 DNA polymerase III subunit epsilon; Validated; Region: PRK06195 765874003817 an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III; Region: DNA_pol_III_epsilon_like; cd06130 765874003818 active site 765874003819 substrate binding site; other site 765874003820 catalytic site; other site 765874003821 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 765874003822 synthetase active site; other site 765874003823 NTP binding site; other site 765874003824 metal-binding site 765874003825 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 765874003826 Uncharacterized conserved protein [Function unknown]; Region: COG1739 765874003827 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 765874003828 Domain of unknown function (DUF1949); Region: DUF1949; pfam09186 765874003829 threonine dehydratase; Validated; Region: PRK08639 765874003830 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 765874003831 tetramer interface; other site 765874003832 pyridoxal 5'-phosphate binding site; other site 765874003833 catalytic residue; other site 765874003834 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 765874003835 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 765874003836 DNA polymerase alpha chain like domain; Region: POLIIIAc; cl02625 765874003837 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 765874003838 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli...; Region: DnaE_OBF; cd04485 765874003839 generic binding surface I; other site 765874003840 generic binding surface II; other site 765874003841 Predicted permeases [General function prediction only]; Region: RarD; COG2962 765874003842 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 765874003843 PseudoU_synth_RsuA/RluD: Pseudouridine synthase, RsuA/RluD family. This group is comprised of eukaryotic, bacterial and archeal proteins similar to eight site specific Escherichia coli pseudouridine synthases: RsuA, RluA, RluB, RluC, RluD, RluE, RluF...; Region: PseudoU_synth_RluCD_like; cd02869 765874003844 active site 765874003845 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 765874003846 N-acetylmuramoyl-L-alanine amidase; Validated; Region: PRK08581 765874003847 Asparaginase (amidohydrolase): Asparaginases are tetrameric enzymes that catalyze the hydrolysis of asparagine to aspartic acid and ammonia. In bacteria, there are two classes of amidohydrolases, one highly specific for asparagine and localised to the...; Region: Asparaginase; cl00216 765874003848 active site/substrate binding site 765874003849 tetramer interface; other site 765874003850 DNA polymerase IV; Provisional; Region: PRK03348 765874003851 DNA Polymerase IV/Kappa; Region: Pol_IV_kappa; cd03586 765874003852 active site 765874003853 DNA binding site 765874003854 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 765874003855 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 765874003856 HIGH motif; other site 765874003857 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 765874003858 active site 765874003859 KMSKS motif; other site 765874003860 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 765874003861 tRNA binding surface; other site 765874003862 anticodon binding site; other site 765874003863 DivIVA domain; Region: DivI1A_domain; TIGR03544 765874003864 Cell division initiation protein [Cell division and chromosome partitioning]; Region: DivIVA; COG3599 765874003865 Protein of unknown function (DUF552); Region: DUF552; cl00775 765874003866 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 765874003867 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 765874003868 Cell division GTPase [Cell division and chromosome partitioning]; Region: FtsZ; COG0206 765874003869 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum...; Region: FtsZ_type1; cd02201 765874003870 nucleotide binding site; other site 765874003871 SulA interaction site; other site 765874003872 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 765874003873 Cell division protein FtsQ; Region: FtsQ; pfam03799 765874003874 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 765874003875 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 765874003876 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 765874003877 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 765874003878 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 765874003879 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl...; Region: GT1_MurG; cd03785 765874003880 homodimer interface; other site 765874003881 active site 765874003882 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 765874003883 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK00141 765874003884 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 765874003885 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 765874003886 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of undecaprenyl-pyrophosphoryl-N-...; Region: GT_MraY; cd06852 765874003887 Mg++ binding site; other site 765874003888 putative catalytic motif; other site 765874003889 putative substrate binding site; other site 765874003890 UDP-N-acetylmuramyl pentapeptide synthase [Cell envelope biogenesis, outer membrane]; Region: MurF; COG0770 765874003891 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 765874003892 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 765874003893 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 765874003894 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 765874003895 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 765874003896 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 765874003897 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 765874003898 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 765874003899 Penicillin-binding Protein dimerization domain; Region: PBP_dimer; pfam03717 765874003900 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 765874003901 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 765874003902 cell division protein MraZ; Reviewed; Region: PRK00326 765874003903 MraZ protein; Region: MraZ; pfam02381 765874003904 MraZ protein; Region: MraZ; pfam02381 765874003905 Protein of unknown function (DUF3040); Region: DUF3040; pfam11239 765874003906 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 765874003907 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine...; Region: MTHFR; cd00537 765874003908 FAD binding site; other site 765874003909 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 765874003910 substrate binding pocket; other site 765874003911 chain length determination region; other site 765874003912 substrate-Mg2+ binding site; other site 765874003913 catalytic residues; other site 765874003914 aspartate-rich region 1; other site 765874003915 active site lid residues 765874003916 aspartate-rich region 2; other site 765874003917 carotene biosynthesis associated membrane protein; Region: crt_membr; TIGR03459 765874003918 Catalytic domain of Protein Kinases; Region: PKc; cd00180 765874003919 active site 765874003920 ATP binding site; other site 765874003921 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 765874003922 substrate binding site; other site 765874003923 activation loop (A-loop); other site 765874003924 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 765874003925 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 765874003926 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 765874003927 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 765874003928 Class-II DAHP synthetase family; Region: DAHP_synth_2; cl03230 765874003929 Predicted acyltransferases [Lipid metabolism]; Region: COG1835; cl00792 765874003930 Acyltransferase family; Region: Acyl_transf_3; pfam01757 765874003931 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 765874003932 putative acyl-acceptor binding pocket; other site 765874003933 ROK family protein (putative glucokinase); Region: ROK_glcA_fam; TIGR00744 765874003934 ROK family; Region: ROK; cl09121 765874003935 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 765874003936 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 765874003937 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 765874003938 NlpC/P60 family; Region: NLPC_P60; cl11438 765874003939 NlpC/P60 family; Region: NLPC_P60; cl11438 765874003940 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 765874003941 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 765874003942 heme bH binding site; other site 765874003943 intrachain domain interface; other site 765874003944 heme bL binding site; other site 765874003945 interchain domain interface; other site 765874003946 Qo binding site; other site 765874003947 Rieske Fe-S protein [Energy production and conversion]; Region: QcrA; COG0723 765874003948 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1)...; Region: Rieske; cd03467 765874003949 iron-sulfur cluster; other site 765874003950 [2Fe-2S] cluster binding site; other site 765874003951 Cytochrome c; Region: Cytochrom_C; cl11414 765874003952 Cytochrome c; Region: Cytochrom_C; cl11414 765874003953 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 765874003954 Subunit I/III interface; other site 765874003955 Cytochrome c oxidase subunit IV; Region: Cyt_c_ox_IV; pfam12270 765874003956 Heme/copper-type cytochrome/quinol oxidases, subunit 2 [Energy production and conversion]; Region: CyoA; COG1622 765874003957 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl10078 765874003958 Asparagine synthase (glutamine-hydrolyzing) [Amino acid transport and metabolism]; Region: AsnB; COG0367 765874003959 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 765874003960 active site 765874003961 dimer interface; other site 765874003962 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...; Region: Asn_Synthase_B_C; cd01991 765874003963 Ligand Binding Site; other site 765874003964 Molecular Tunnel; other site 765874003965 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 765874003966 Protein of unknown function (DUF3043); Region: DUF3043; pfam11241 765874003967 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is...; Region: CobU; cd00544 765874003968 homotrimer interface; other site 765874003969 Walker A motif; other site 765874003970 GTP binding site; other site 765874003971 Walker B motif; other site 765874003972 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 765874003973 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 765874003974 putative dimer interface; other site 765874003975 active site pocket 765874003976 putative cataytic base; other site 765874003977 Cobalamin-5-phosphate synthase; Region: CobS; cl00415 765874003978 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 765874003979 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and alpha-...; Region: BCAT_beta_family; cd01557 765874003980 homodimer interface; other site 765874003981 substrate-cofactor binding pocket; other site 765874003982 catalytic residue; other site 765874003983 leucyl aminopeptidase; Provisional; Region: PRK00913 765874003984 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein...; Region: Peptidase_M17; cd00433 765874003985 interface (dimer of trimers); other site 765874003986 Substrate-binding/catalytic site; other site 765874003987 Zn-binding sites; other site 765874003988 dihydrolipoamide acetyltransferase; Validated; Region: aceF; PRK11854 765874003989 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 765874003990 E3 interaction surface; other site 765874003991 lipoyl attachment site; other site 765874003992 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 765874003993 E3 interaction surface; other site 765874003994 lipoyl attachment site; other site 765874003995 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 765874003996 E3 interaction surface; other site 765874003997 lipoyl attachment site; other site 765874003998 e3 binding domain; Region: E3_binding; pfam02817 765874003999 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 765874004000 glycine dehydrogenase; Provisional; Region: PRK05367 765874004001 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2...; Region: GDC-P; cd00613 765874004002 tetramer interface; other site 765874004003 pyridoxal 5'-phosphate binding site; other site 765874004004 catalytic residue; other site 765874004005 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2...; Region: GDC-P; cd00613 765874004006 tetramer interface; other site 765874004007 pyridoxal 5'-phosphate binding site; other site 765874004008 catalytic residue; other site 765874004009 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 765874004010 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 765874004011 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and L-...; Region: GCS_H; cd06848 765874004012 lipoyl attachment site; other site 765874004013 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 765874004014 active site 765874004015 metal-binding site 765874004016 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 765874004017 lipoyl synthase; Provisional; Region: PRK05481 765874004018 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 765874004019 FeS/SAM binding site; other site 765874004020 RDD family; Region: RDD; cl00746 765874004021 glutamine synthetase, type I; Region: GlnA; TIGR00653 765874004022 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 765874004023 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 765874004024 Protein of unknown function (DUF2815); Region: DUF2815; pfam10991 765874004025 potential frameshift: common BLAST hit: gi|50843072|ref|YP_056299.1| phage-associated protein 765874004026 Protein of unknown function (DUF2800); Region: DUF2800; pfam10926 765874004027 Protein of unknown function (DUF2800); Region: DUF2800; pfam10926 765874004028 sporulation sigma factor SigF; Validated; Region: PRK05572 765874004029 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial...; Region: Sigma70_r4; cd06171 765874004030 DNA binding residues 765874004031 Predicted ATPase [General function prediction only]; Region: COG5293 765874004032 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl09100 765874004033 Adenine specific DNA methylase Mod [DNA replication, recombination, and repair]; Region: COG2189 765874004034 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 765874004035 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 765874004036 potential frameshift: common BLAST hit: gi|222150485|ref|YP_002559638.1| type III restriction-modification system restriction endonuclease 765874004037 Restriction endonuclease [Defense mechanisms]; Region: COG3587 765874004038 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; cl12029 765874004039 potential frameshift: common BLAST hit: gi|269797513|ref|YP_003311413.1| type III restriction protein res subunit 765874004040 Restriction endonuclease [Defense mechanisms]; Region: COG3587 765874004041 Restriction endonuclease [Defense mechanisms]; Region: COG3587 765874004042 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 765874004043 TOPRIM_OLD: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in bacterial and archaeal nucleases of the OLD (overcome lysogenization defect) family. The bacteriophage P2 OLD protein, which has DNase as well as...; Region: TOPRIM_OLD; cd01026 765874004044 putative active site; other site 765874004045 putative metal-binding site; other site 765874004046 UvrD/REP helicase; Region: UvrD-helicase; cl14126 765874004047 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 765874004048 HsdM N-terminal domain; Region: HsdM_N; pfam12161 765874004049 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 765874004050 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 765874004051 Walker A/P-loop; other site 765874004052 ATP binding site; other site 765874004053 Q-loop/lid; other site 765874004054 ABC transporter signature motif; other site 765874004055 Walker B; other site 765874004056 D-loop; other site 765874004057 H-loop/switch region; other site 765874004058 Htaa; Region: HtaA; pfam04213 765874004059 Htaa; Region: HtaA; pfam04213 765874004060 Phosphotransferase system, EIIC; Region: PTS_EIIC; cl00557 765874004061 inosine 5-monophosphate dehydrogenase; Validated; Region: PRK07807 765874004062 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 765874004063 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-...; Region: CBS_pair; cd02205 765874004064 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the...; Region: IMPDH; cd00381 765874004065 active site 765874004066 CsbD-like; Region: CsbD; cl01272 765874004067 Predicted permease [General function prediction only]; Region: COG2056 765874004068 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 765874004069 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 765874004070 nudix motif; other site 765874004071 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 765874004072 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...; Region: Thr-synth_2; cd01560 765874004073 pyridoxal 5'-phosphate binding site; other site 765874004074 catalytic residue; other site 765874004075 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 765874004076 heme binding pocket; other site 765874004077 heme ligand; other site 765874004078 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Provisional; Region: PRK14109 765874004079 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 765874004080 metal binding triad; other site 765874004081 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 765874004082 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 765874004083 metal binding triad; other site 765874004084 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 765874004085 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 765874004086 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 765874004087 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 765874004088 CYTH-like (also known as triphosphate tunnel metalloenzyme (TTM)-like) Phosphatases; Region: CYTH-like_Pase; cd07374 765874004089 putative active site; other site 765874004090 putative metal binding residues; other site 765874004091 signature motif; other site 765874004092 putative triphosphate binding site; other site 765874004093 CHAD domain; Region: CHAD; cl10506 765874004094 Galactokinase [Carbohydrate transport and metabolism]; Region: GalK; COG0153 765874004095 Galactokinase galactose-binding signature; Region: GalKase_gal_bdg; pfam10509 765874004096 RNB domain; Region: RNB; pfam00773 765874004097 bifunctional RNase H/acid phosphatase; Provisional; Region: PRK07238 765874004098 RNase H (RNase HI) is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a not sequence-specific manner. One of the important functions of RNase H is to remove Okazaki fragments during DNA replication. RNase H knockout mice lack...; Region: RnaseH; cd06222 765874004099 RNA/DNA hybrid binding site; other site 765874004100 active site 765874004101 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 765874004102 catalytic core; other site 765874004103 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 765874004104 Putative zinc ribbon domain; Region: DUF164; pfam02591 765874004105 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl01309 765874004106 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 765874004107 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl01309 765874004108 hypothetical protein; Provisional; Region: PRK07908 765874004109 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 765874004110 pyridoxal 5'-phosphate binding site; other site 765874004111 homodimer interface; other site 765874004112 catalytic residue; other site 765874004113 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 765874004114 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 765874004115 motif II; other site 765874004116 Low molecular weight phosphatase family; Region: LMWPc; cd00115 765874004117 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 765874004118 CobD/Cbib protein; Region: CobD_Cbib; cl00561 765874004119 Protein of unknown function (DUF3052); Region: DUF3052; pfam11253 765874004120 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 765874004121 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 765874004122 dimer interface; other site 765874004123 TPP-binding site; other site 765874004124 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 765874004125 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 765874004126 Phosphopantetheine attachment site; Region: PP-binding; cl09936 765874004127 Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]; Region: NagD; COG0647 765874004128 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 765874004129 active site 765874004130 motif I; other site 765874004131 motif II; other site 765874004132 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 765874004133 Beta-lactamase; Region: Beta-lactamase; cl01009 765874004134 UPF0126 domain; Region: UPF0126; pfam03458 765874004135 UPF0126 domain; Region: UPF0126; pfam03458 765874004136 DNA primase; Validated; Region: dnaG; PRK05667 765874004137 CHC2 zinc finger; Region: zf-CHC2; cl02597 765874004138 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 765874004139 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 765874004140 active site 765874004141 metal-binding site 765874004142 interdomain interaction site; other site 765874004143 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 765874004144 DNA primase DnaG DnaB-binding; Region: DnaG_DnaB_bind; cl07879 765874004145 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 765874004146 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate...; Region: GFAT; cd00714 765874004147 glutaminase active site; other site 765874004148 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 765874004149 dimer interface; other site 765874004150 active site 765874004151 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 765874004152 dimer interface; other site 765874004153 active site 765874004154 RNase_Sa. Ribonucleases first isolated from Streptomyces aureofaciens. In general, ribonucleases cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. RNAse Sa is a...; Region: RNase_Sa; cd00607 765874004155 active site 765874004156 barstar interaction site; other site 765874004157 deoxyguanosinetriphosphate triphosphohydrolase; Provisional; Region: dgt; PRK04926 765874004158 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 765874004159 Zn2+ binding site; other site 765874004160 Mg2+ binding site; other site 765874004161 YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been...; Region: YdcF-like; cd06259 765874004162 putative active site; other site 765874004163 Domain of unknown function (DUF477); Region: DUF477; cl01535 765874004164 glycyl-tRNA synthetase; Provisional; Region: PRK04173 765874004165 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 765874004166 motif 1; other site 765874004167 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the...; Region: GlyRS-like_core; cd00774 765874004168 dimer interface; other site 765874004169 active site 765874004170 motif 2; other site 765874004171 motif 3; other site 765874004172 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 765874004173 anticodon binding site; other site 765874004174 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 765874004175 dimerization interface; other site 765874004176 putative DNA binding site; other site 765874004177 putative Zn2+ binding site; other site 765874004178 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 765874004179 metal binding site 2; metal-binding site 765874004180 putative DNA binding helix; other site 765874004181 metal binding site 1; metal-binding site 765874004182 dimer interface; other site 765874004183 structural Zn2+ binding site; other site 765874004184 Ferritin-CCC1, N-terminal ferritin-like diiron-binding domain; Region: Ferritin_CCC1_N; cd01044 765874004185 diiron binding motif; other site 765874004186 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_2; cd02433 765874004187 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 765874004188 catalytic residue; other site 765874004189 putative FPP diphosphate binding site; other site 765874004190 putative FPP binding hydrophobic cleft; other site 765874004191 dimer interface; other site 765874004192 putative IPP diphosphate binding site; other site 765874004193 Recombination protein O N terminal; Region: RecO_N; pfam11967 765874004194 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 765874004195 Recombination protein O C terminal; Region: RecO_C; pfam02565 765874004196 GTP-binding protein Era; Reviewed; Region: era; PRK00089 765874004197 Era subfamily. Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit...; Region: Era; cd04163 765874004198 G1 box; other site 765874004199 GTP/Mg2+ binding site; other site 765874004200 Switch I region; other site 765874004201 G2 box; other site 765874004202 Switch II region; other site 765874004203 G3 box; other site 765874004204 G4 box; other site 765874004205 G5 box; other site 765874004206 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...; Region: KH-I; cl00098 765874004207 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 765874004208 dimer interface; other site 765874004209 pyridoxal binding site; other site 765874004210 ATP binding site; other site 765874004211 Domain of unknown function DUF21; Region: DUF21; pfam01595 765874004212 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 765874004213 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 765874004214 PhoH-like protein; Region: PhoH; cl12134 765874004215 RNA methyltransferase; Region: Methyltrans_RNA; cl00611 765874004216 chaperone protein DnaJ; Provisional; Region: PRK14278 765874004217 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of...; Region: DnaJ; cd06257 765874004218 HSP70 interaction site; other site 765874004219 DnaJ C terminal region; Region: DnaJ_C; pfam01556 765874004220 DnaJ C terminal region; Region: DnaJ_C; pfam01556 765874004221 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 765874004222 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 765874004223 HrcA protein C terminal domain; Region: HrcA; pfam01628 765874004224 coproporphyrinogen III oxidase; Validated; Region: PRK05628 765874004225 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 765874004226 FeS/SAM binding site; other site 765874004227 HemN C-terminal region; Region: HemN_C; pfam06969 765874004228 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 765874004229 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 765874004230 4-alpha-glucanotransferase; Provisional; Region: malQ; PRK11052 765874004231 4-alpha-glucanotransferase; Region: Glyco_hydro_77; cl00711 765874004232 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 765874004233 Peptidase family M3 dipeptidyl carboxypeptidase (DCP; Dcp II; peptidyl dipeptidase; EC 3.4.15.5). This metal-binding M3A family also includes oligopeptidase A (OpdA; EC 3.4.24.70) enzyme. DCP cleaves dipeptides off the C-termini of various peptides and...; Region: M3A_DCP_Oligopeptidase_A; cd06456 765874004234 active site 765874004235 zinc binding site; other site 765874004236 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 765874004237 substrate binding pocket; other site 765874004238 catalytic triad; other site 765874004239 Isopentenyldiphosphate isomerase [Lipid metabolism]; Region: Idi; COG1443 765874004240 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and...; Region: IPP_Isomerase; cd02885 765874004241 active site 765874004242 metal-binding site 765874004243 nudix motif; other site 765874004244 potential frameshift: common BLAST hit: gi|38234306|ref|NP_940073.1| ABC transporter ATP-binding protein 765874004245 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 765874004246 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 765874004247 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 765874004248 Walker A/P-loop; other site 765874004249 ATP binding site; other site 765874004250 Q-loop/lid; other site 765874004251 ABC transporter signature motif; other site 765874004252 Walker B; other site 765874004253 D-loop; other site 765874004254 H-loop/switch region; other site 765874004255 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 765874004256 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 765874004257 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins...; Region: HNHc; cd00085 765874004258 active site 765874004259 BCCT family transporter; Region: BCCT; cl00569 765874004260 Membrane transport protein; Region: Mem_trans; cl09117 765874004261 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 765874004262 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_6; cd08494 765874004263 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 765874004264 dimer interface; other site 765874004265 conserved gate region; other site 765874004266 putative PBP binding loops; other site 765874004267 ABC-ATPase subunit interface; other site 765874004268 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 765874004269 dimer interface; other site 765874004270 conserved gate region; other site 765874004271 putative PBP binding loops; other site 765874004272 ABC-ATPase subunit interface; other site 765874004273 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 765874004274 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 765874004275 Walker A/P-loop; other site 765874004276 ATP binding site; other site 765874004277 Q-loop/lid; other site 765874004278 ABC transporter signature motif; other site 765874004279 Walker B; other site 765874004280 D-loop; other site 765874004281 H-loop/switch region; other site 765874004282 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 765874004283 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 765874004284 Walker A/P-loop; other site 765874004285 ATP binding site; other site 765874004286 Q-loop/lid; other site 765874004287 ABC transporter signature motif; other site 765874004288 Walker B; other site 765874004289 D-loop; other site 765874004290 H-loop/switch region; other site 765874004291 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 765874004292 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 765874004293 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 765874004294 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 765874004295 pyridoxal 5'-phosphate (PLP) binding site; other site 765874004296 catalytic residue; other site 765874004297 YeeE/YedE family (DUF395); Region: DUF395; cl01018 765874004298 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this two-...; Region: SirA_YedF_YeeD; cd00291 765874004299 CPxP motif; other site 765874004300 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 765874004301 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 765874004302 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 765874004303 Major Facilitator Superfamily; Region: MFS_1; pfam07690 765874004304 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 765874004305 putative substrate translocation pore; other site 765874004306 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 765874004307 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 765874004308 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 765874004309 Walker A/P-loop; other site 765874004310 ATP binding site; other site 765874004311 Q-loop/lid; other site 765874004312 ABC transporter signature motif; other site 765874004313 Walker B; other site 765874004314 D-loop; other site 765874004315 H-loop/switch region; other site 765874004316 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 765874004317 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 765874004318 Walker A/P-loop; other site 765874004319 ATP binding site; other site 765874004320 Q-loop/lid; other site 765874004321 ABC transporter signature motif; other site 765874004322 Walker B; other site 765874004323 D-loop; other site 765874004324 H-loop/switch region; other site 765874004325 GTP-binding protein LepA; Provisional; Region: PRK05433 765874004326 LepA subfamily. LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and...; Region: LepA; cd01890 765874004327 G1 box; other site 765874004328 putative GEF interaction site; other site 765874004329 GTP/Mg2+ binding site; other site 765874004330 Switch I region; other site 765874004331 G2 box; other site 765874004332 G3 box; other site 765874004333 Switch II region; other site 765874004334 G4 box; other site 765874004335 G5 box; other site 765874004336 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-...; Region: lepA_II; cd03699 765874004337 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 765874004338 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 765874004339 PemK-like protein; Region: PemK; cl00995 765874004340 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 765874004341 LysE type translocator; Region: LysE; cl00565 765874004342 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 765874004343 hypothetical protein; Validated; Region: PRK05629 765874004344 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 765874004345 Competence protein; Region: Competence; cl00471 765874004346 Uncharacterized protein, DegV family COG1307; Region: DegV; cl00577 765874004347 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 765874004348 catalytic core; other site 765874004349 Domain of unknown function DUF143; Region: DUF143; cl00519 765874004350 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 765874004351 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 765874004352 active site 765874004353 substrate binding site; other site 765874004354 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 765874004355 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 765874004356 putative catalytic cysteine; other site 765874004357 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 765874004358 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 765874004359 Protein of unknown function (DUF454); Region: DUF454; cl01063 765874004360 Predicted permease [General function prediction only]; Region: COG2985 765874004361 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 765874004362 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 765874004363 Predicted Permease Membrane Region; Region: Asp-Al_Ex; cl06061 765874004364 gamma-glutamyl kinase; Provisional; Region: PRK05429 765874004365 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 765874004366 nucleotide binding site; other site 765874004367 homotetrameric interface; other site 765874004368 putative phosphate binding site; other site 765874004369 putative allosteric binding site; other site 765874004370 PUA domain; Region: PUA; cl00607 765874004371 GTPase ObgE; Reviewed; Region: obgE; PRK12296 765874004372 GTP1/OBG; Region: GTP1_OBG; pfam01018 765874004373 Obg subfamily. The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins...; Region: Obg; cd01898 765874004374 G1 box; other site 765874004375 GTP/Mg2+ binding site; other site 765874004376 Switch I region; other site 765874004377 G2 box; other site 765874004378 G3 box; other site 765874004379 Switch II region; other site 765874004380 G4 box; other site 765874004381 G5 box; other site 765874004382 Domain of unknown function (DUF1967); Region: DUF1967; cl07779 765874004383 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 765874004384 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 765874004385 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 765874004386 translation initiation factor IF-2; Validated; Region: infB; PRK05306 765874004387 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 765874004388 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 765874004389 homodimer interface; other site 765874004390 oligonucleotide binding site; other site 765874004391 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 765874004392 active site 765874004393 multimer interface; other site 765874004394 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 765874004395 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 765874004396 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 765874004397 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 765874004398 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 765874004399 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 765874004400 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 765874004401 HIGH motif; other site 765874004402 active site 765874004403 nucleotide binding site; other site 765874004404 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 765874004405 active site 765874004406 KMSKS motif; other site 765874004407 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 765874004408 tRNA binding surface; other site 765874004409 anticodon binding site; other site 765874004410 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 765874004411 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 765874004412 malate dehydrogenase; Provisional; Region: PRK05442 765874004413 NAD(P) binding site; other site 765874004414 dimer interface; other site 765874004415 malate binding site; other site 765874004416 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 765874004417 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 765874004418 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 765874004419 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 765874004420 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 765874004421 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 765874004422 Walker A motif; other site 765874004423 ATP binding site; other site 765874004424 Walker B motif; other site 765874004425 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 765874004426 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 765874004427 Glutamine amidotransferase class-I; Region: GATase; pfam00117 765874004428 glutamine binding; other site 765874004429 catalytic triad; other site 765874004430 anthranilate synthase component I, archaeal clade; Region: TrpE-arch; TIGR01820 765874004431 chorismate binding enzyme; Region: Chorismate_bind; cl10555 765874004432 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 765874004433 substrate-cofactor binding pocket; other site 765874004434 Aminotransferase class IV; Region: Aminotran_4; pfam01063 765874004435 pyridoxal 5'-phosphate binding site; other site 765874004436 catalytic residue; other site 765874004437 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 765874004438 oligomer interface; other site 765874004439 active site residues 765874004440 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 765874004441 oligomer interface; other site 765874004442 active site residues 765874004443 trigger factor; Provisional; Region: tig; PRK01490 765874004444 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 765874004445 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 765874004446 Pirin-related protein [General function prediction only]; Region: COG1741 765874004447 Cupin domain; Region: Cupin_2; cl09118 765874004448 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 765874004449 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 765874004450 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 765874004451 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 765874004452 catalytic residues; other site 765874004453 potential frameshift: common BLAST hit: gi|38234369|ref|NP_940136.1| putative aminopeptidase 765874004454 Peptidase family M1; Region: Peptidase_M1; pfam01433 765874004455 Peptidase family M1; Region: Peptidase_M1; pfam01433 765874004456 Domain of unknown function (DUF3358); Region: DUF3358; pfam11838 765874004457 Mechanosensitive ion channel; Region: MS_channel; pfam00924 765874004458 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is...; Region: Trunc_globin; cd00454 765874004459 apolar tunnel; other site 765874004460 heme binding site; other site 765874004461 dimerization interface; other site 765874004462 Protein of unknown function, DUF606; Region: DUF606; cl01273 765874004463 Protein of unknown function, DUF606; Region: DUF606; cl01273 765874004464 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active...; Region: 4HBT; cd00586 765874004465 active site 765874004466 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 765874004467 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 765874004468 Walker A/P-loop; other site 765874004469 ATP binding site; other site 765874004470 Q-loop/lid; other site 765874004471 ABC transporter signature motif; other site 765874004472 Walker B; other site 765874004473 D-loop; other site 765874004474 H-loop/switch region; other site 765874004475 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by...; Region: ABCF_EF-3; cd03221 765874004476 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 765874004477 dimer interface; other site 765874004478 ssDNA binding site; other site 765874004479 tetramer (dimer of dimers) interface; other site 765874004480 YcaO-like family; Region: YcaO; cl09146 765874004481 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the...; Region: mcbC-like_oxidoreductase; cd02142 765874004482 NADPH bind site; other site 765874004483 putative FMN binding site; other site 765874004484 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 765874004485 YcaO-like family; Region: YcaO; cl09146 765874004486 Flagellar biosynthesis pathway, component FlhB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FlhB; cl12017 765874004487 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 765874004488 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 765874004489 Walker A/P-loop; other site 765874004490 ATP binding site; other site 765874004491 Q-loop/lid; other site 765874004492 ABC transporter signature motif; other site 765874004493 Walker B; other site 765874004494 D-loop; other site 765874004495 H-loop/switch region; other site 765874004496 Copper resistance protein D; Region: CopD; cl00563 765874004497 Cytochrome c oxidase caa3 assembly factor (Caa3_CtaG); Region: Caa3_CtaG; cl09173 765874004498 Carbon starvation protein CstA; Region: CstA; cl00856 765874004499 Peptidase S8 family domain, uncharacterized subfamily 13; Region: Peptidases_S8_13; cd07496 765874004500 active site 765874004501 catalytic triad; other site 765874004502 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 765874004503 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 765874004504 NADP binding site; other site 765874004505 dimer interface; other site 765874004506 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 765874004507 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 765874004508 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 765874004509 putative active site; other site 765874004510 putative substrate binding site; other site 765874004511 catalytic site; other site 765874004512 dimer interface; other site 765874004513 Dihydrodipicolinate synthase family. A member of the class I aldolases, which use an active-site lysine which stablilzes a reaction intermediate via Schiff base formation, and have TIM beta/alpha barrel fold. The dihydrodipicolinate synthase family...; Region: DHDPS-like; cd00408 765874004514 N-acetylneuraminate lyase; Region: nanA; TIGR00683 765874004515 inhibitor site; inhibition site 765874004516 active site 765874004517 dimer interface; other site 765874004518 catalytic residue; other site 765874004519 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 765874004520 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 765874004521 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 765874004522 Prostaglandin dehydrogenases; Region: PGDH; cd05288 765874004523 NAD(P) binding site; other site 765874004524 substrate binding site; other site 765874004525 dimer interface; other site 765874004526 Nicotinamidase/pyrazinamidase (PZase). Nicotinamidase, a ubiquitous enzyme in prokaryotes, converts nicotinamide to nicotinic acid (niacin) and ammonia, which in turn can be recycled to make nicotinamide adenine dinucleotide (NAD). The same enzyme is...; Region: nicotinamidase; cd01011 765874004527 Isochorismatase family; Region: Isochorismatase; pfam00857 765874004528 catalytic triad; other site 765874004529 metal-binding site 765874004530 conserved cis-peptide bond; other site 765874004531 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 765874004532 Protein of unknown function (DUF3618); Region: DUF3618; pfam12277 765874004533 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by...; Region: PRX_BCP; cd03017 765874004534 catalytic triad; other site 765874004535 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 765874004536 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 765874004537 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 765874004538 Acyl transferase domain; Region: Acyl_transf_1; cl08282 765874004539 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 765874004540 Enoyl reductase domain of yeast-type FAS1 [Lipid metabolism]; Region: COG4981 765874004541 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin...; Region: NPD_like; cd04730 765874004542 FMN binding site; other site 765874004543 substrate binding site; other site 765874004544 putative catalytic residue; other site 765874004545 Domain of unknown function (DUF1729); Region: DUF1729; pfam08354 765874004546 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 765874004547 active site 2 765874004548 active site 1 765874004549 Acyl transferase domain; Region: Acyl_transf_1; cl08282 765874004550 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 765874004551 3-oxoacyl-[acyl-carrier protein]; Region: COG4982 765874004552 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 765874004553 'elongating' condensing enzymes are a subclass of decarboxylating condensing enzymes, including beta-ketoacyl [ACP] synthase, type I and II and polyketide synthases.They are characterized by the utlization of acyl carrier protein (ACP) thioesters as...; Region: elong_cond_enzymes; cd00828 765874004554 active site 765874004555 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 765874004556 Histidine kinase; Region: HisKA_3; pfam07730 765874004557 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 765874004558 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 765874004559 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 765874004560 active site 765874004561 phosphorylation site 765874004562 intermolecular recognition site; other site 765874004563 dimerization interface; other site 765874004564 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors...; Region: LuxR_C_like; cd06170 765874004565 DNA binding residues 765874004566 dimerization interface; other site 765874004567 Predicted membrane protein [Function unknown]; Region: COG2311 765874004568 Protein of unknown function (DUF418); Region: DUF418; cl12135 765874004569 Glucitol operon activator protein (GutM); Region: GutM; cl01890 765874004570 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A Ham1-...; Region: HAM1; cd00515 765874004571 active site 765874004572 dimerization interface; other site 765874004573 ribonuclease PH; Reviewed; Region: rph; PRK00173 765874004574 3' exoribonuclease family, domain 1; Region: RNase_PH; pfam01138 765874004575 3' exoribonuclease family, domain 2; Region: RNase_PH_C; pfam03725 765874004576 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 765874004577 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 765874004578 Rhomboid family; Region: Rhomboid; cl11446 765874004579 Domain of unknown function (DUF2017); Region: DUF2017; pfam09438 765874004580 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 765874004581 nicotinate phosphoribosyltransferase; Validated; Region: PRK09243 765874004582 Nicotinate phosphoribosyltransferase (NAPRTase), subgroup A. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting...; Region: NAPRTase_A; cd01570 765874004583 active site 765874004584 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 765874004585 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; cl12029 765874004586 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; cl12029 765874004587 helicase superfamily c-terminal domain; Region: HELICc2; cl09250 765874004588 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 765874004589 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 765874004590 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 765874004591 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 765874004592 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 765874004593 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 765874004594 motif II; other site 765874004595 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 765874004596 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 765874004597 D-pathway; other site 765874004598 Putative ubiquinol binding site; other site 765874004599 Low-spin heme (heme b) binding site; other site 765874004600 Putative water exit pathway; other site 765874004601 Binuclear center (heme o3/CuB); other site 765874004602 K-pathway; other site 765874004603 Putative proton exit pathway; other site 765874004604 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 765874004605 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 765874004606 dimer interface; other site 765874004607 putative radical transfer pathway; other site 765874004608 diiron center; other site 765874004609 tyrosyl radical; other site 765874004610 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 765874004611 Ferritin-like domain; Region: Ferritin; pfam00210 765874004612 ferroxidase diiron center; other site 765874004613 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK08188 765874004614 Ribonucleotide reductase N-terminal; Region: RNR_N; pfam08343 765874004615 Class I ribonucleotide reductase; Region: RNR_I; cd01679 765874004616 active site 765874004617 dimer interface; other site 765874004618 catalytic residues; other site 765874004619 effector binding site; other site 765874004620 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 765874004621 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 765874004622 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide...; Region: NrdH; cd02976 765874004623 catalytic residues; other site 765874004624 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 765874004625 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 765874004626 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to...; Region: NAD_synthase; cd00553 765874004627 homodimer interface; other site 765874004628 NAD binding pocket; other site 765874004629 ATP binding pocket; other site 765874004630 Mg binding site; other site 765874004631 active-site loop 765874004632 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 765874004633 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 765874004634 dimerization interface; other site 765874004635 putative DNA binding site; other site 765874004636 putative Zn2+ binding site; other site 765874004637 potential frameshift: common BLAST hit: gi|297625704|ref|YP_003687467.1| Heavy metal-(Cd/Co/Hg/Pb/Zn)-translocating P-type ATPase 765874004638 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 765874004639 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 765874004640 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 765874004641 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 765874004642 Methylamine utilisation protein MauE; Region: MauE; pfam07291 765874004643 phosphoglucomutase; Validated; Region: PRK07564 765874004644 This bacterial PGM-like (phosphoglucomutase-like) protein of unknown function belongs to the alpha-D-phosphohexomutase superfamily. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl...; Region: PGM_like3; cd05801 765874004645 active site 765874004646 substrate binding site; other site 765874004647 metal-binding site 765874004648 CrcB-like protein; Region: CRCB; cl09114 765874004649 CrcB-like protein; Region: CRCB; cl09114 765874004650 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 765874004651 Predicted permease; Region: FtsX; cl11418 765874004652 Predicted permease; Region: FtsX; cl11418 765874004653 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 765874004654 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 765874004655 Walker A/P-loop; other site 765874004656 ATP binding site; other site 765874004657 Q-loop/lid; other site 765874004658 ABC transporter signature motif; other site 765874004659 Walker B; other site 765874004660 D-loop; other site 765874004661 H-loop/switch region; other site 765874004662 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 765874004663 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 765874004664 hinge; other site 765874004665 active site 765874004666 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 765874004667 ATP-dependent transcriptional regulator [Transcription]; Region: MalT; COG2909 765874004668 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors...; Region: LuxR_C_like; cd06170 765874004669 DNA binding residues 765874004670 dimerization interface; other site 765874004671 cysteine synthases; Region: cysKM; TIGR01136 765874004672 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 765874004673 dimer interface; other site 765874004674 pyridoxal 5'-phosphate binding site; other site 765874004675 catalytic residue; other site 765874004676 serine O-acetyltransferase; Region: cysE; TIGR01172 765874004677 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of L-...; Region: LbH_SAT; cd03354 765874004678 trimer interface; other site 765874004679 active site 765874004680 substrate binding site; other site 765874004681 CoA binding site; other site 765874004682 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 765874004683 Glycerol dehydrogenase-like; Region: GlyDH-like2; cd08171 765874004684 Iron-containing alcohol dehydrogenase; Region: Fe-ADH; pfam00465 765874004685 putative active site; other site 765874004686 metal-binding site 765874004687 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 765874004688 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 765874004689 cytochrome d oxidase, subunit II (cydB); Region: cydB; TIGR00203 765874004690 thiol reductant ABC exporter, CydD subunit; Region: CydD; TIGR02857 765874004691 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 765874004692 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 765874004693 Walker A/P-loop; other site 765874004694 ATP binding site; other site 765874004695 Q-loop/lid; other site 765874004696 ABC transporter signature motif; other site 765874004697 Walker B; other site 765874004698 H-loop/switch region; other site 765874004699 thiol reductant ABC exporter, CydC subunit; Region: CydC; TIGR02868 765874004700 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 765874004701 Walker A/P-loop; other site 765874004702 ATP binding site; other site 765874004703 Q-loop/lid; other site 765874004704 ABC transporter signature motif; other site 765874004705 Walker B; other site 765874004706 D-loop; other site 765874004707 H-loop/switch region; other site 765874004708 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 765874004709 succinate CoA transferases; Region: YgfH_subfam; TIGR03458 765874004710 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 765874004711 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and...; Region: DUS_like_FMN; cd02801 765874004712 FMN binding site; other site 765874004713 active site 765874004714 catalytic residues; other site 765874004715 substrate binding site; other site 765874004716 phosphate transport system regulatory protein PhoU; Region: phoU_full; TIGR02135 765874004717 PhoU domain; Region: PhoU; pfam01895 765874004718 phosphate transporter ATP-binding protein; Provisional; Region: PRK14241 765874004719 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 765874004720 Walker A/P-loop; other site 765874004721 ATP binding site; other site 765874004722 Q-loop/lid; other site 765874004723 ABC transporter signature motif; other site 765874004724 Walker B; other site 765874004725 D-loop; other site 765874004726 H-loop/switch region; other site 765874004727 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 765874004728 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 765874004729 dimer interface; other site 765874004730 conserved gate region; other site 765874004731 putative PBP binding loops; other site 765874004732 ABC-ATPase subunit interface; other site 765874004733 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 765874004734 mycothiol biosynthesis acetyltransferase; Region: mycothiol_MshD; TIGR03448 765874004735 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 765874004736 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 765874004737 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 765874004738 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 765874004739 nitrobindin heme-binding domain; Region: nitrobindin; cd07828 765874004740 heme-binding site; other site 765874004741 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 765874004742 Aminotransferase class IV; Region: Aminotran_4; pfam01063 765874004743 pyridoxal 5'-phosphate binding site; other site 765874004744 catalytic residue; other site 765874004745 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 765874004746 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 765874004747 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 765874004748 Protein of unknown function (DUF3073); Region: DUF3073; pfam11273 765874004749 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 765874004750 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine...; Region: PurM; cd02196 765874004751 dimerization interface; other site 765874004752 putative ATP binding site; other site 765874004753 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 765874004754 active site 765874004755 amidophosphoribosyltransferase; Provisional; Region: PRK07847 765874004756 tetramer interface; other site 765874004757 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 765874004758 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 765874004759 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 765874004760 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 765874004761 dimer interface; other site 765874004762 putative radical transfer pathway; other site 765874004763 diiron center; other site 765874004764 tyrosyl radical; other site 765874004765 Haemolysin-III related; Region: HlyIII; cl03831 765874004766 phosphoribosylformylglycinamidine synthase II; Provisional; Region: PRK01213 765874004767 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 765874004768 dimerization interface; other site 765874004769 ATP binding site; other site 765874004770 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 765874004771 dimerization interface; other site 765874004772 ATP binding site; other site 765874004773 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 765874004774 putative active site; other site 765874004775 catalytic triad; other site 765874004776 Phosphoribosylformylglycinamidine (FGAM) synthase; Region: PurS; cl00789 765874004777 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...; Region: GSH_Peroxidase; cd00340 765874004778 catalytic residues; other site 765874004779 dimer interface; other site 765874004780 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 765874004781 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 765874004782 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 765874004783 ATP binding site; other site 765874004784 active site 765874004785 phosphoribosylaminoimidazole-succinocarboxamide synthase; Provisional; Region: PRK13959 765874004786 substrate binding site; other site 765874004787 adenylosuccinate lyase; Provisional; Region: PRK08937 765874004788 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 765874004789 tetramer interface; other site 765874004790 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 765874004791 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 765874004792 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl09110 765874004793 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 765874004794 Cation transport protein; Region: TrkH; cl10514 765874004795 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 765874004796 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 765874004797 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 765874004798 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 765874004799 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the...; Region: HIT_like; cl00228 765874004800 nucleotide binding site/active site; other site 765874004801 HIT family signature motif; other site 765874004802 catalytic residue; other site 765874004803 Esterase/lipase [General function prediction only]; Region: COG1647 765874004804 Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices connected by an extended linker. The...; Region: HAMP; cl01054 765874004805 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via trans-...; Region: HisKA; cd00082 765874004806 dimer interface; other site 765874004807 phosphorylation site 765874004808 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 765874004809 ATP binding site; other site 765874004810 Mg2+ binding site; other site 765874004811 G-X-G motif; other site 765874004812 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 765874004813 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 765874004814 active site 765874004815 phosphorylation site 765874004816 intermolecular recognition site; other site 765874004817 dimerization interface; other site 765874004818 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase...; Region: trans_reg_C; cd00383 765874004819 DNA binding site 765874004820 potential frameshift: common BLAST hit: gi|62391450|ref|YP_226852.1| major facilitator superfamily permease 765874004821 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 765874004822 putative substrate translocation pore; other site 765874004823 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 765874004824 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 765874004825 Predicted esterase [General function prediction only]; Region: COG0627 765874004826 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 765874004827 Permease family; Region: Xan_ur_permease; cl00967 765874004828 OHCU decarboxylase; Region: OHCU_decarbox; cl01251 765874004829 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 765874004830 pyruvate dehydrogenase; Provisional; Region: PRK06546 765874004831 Pyrimidine (PYR) binding domain of POX; Region: TPP_PYR_POX; cd07039 765874004832 PYR/PP interface; other site 765874004833 tetramer interface; other site 765874004834 dimer interface; other site 765874004835 TPP binding site; other site 765874004836 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 765874004837 Thiamine pyrophosphate (TPP) family, Pyruvate oxidase (POX) subfamily, TPP-binding module; composed of proteins similar to Lactobacillus plantarum POX, which plays a key role in controlling acetate production under aerobic conditions. POX...; Region: TPP_POX; cd02014 765874004838 TPP-binding site; other site 765874004839 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 765874004840 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 765874004841 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 765874004842 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 765874004843 Trehalose-6-phosphate synthase [Carbohydrate transport and metabolism]; Region: OtsA; COG0380 765874004844 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...; Region: GT1_TPS; cd03788 765874004845 active site 765874004846 homotetramer interface; other site 765874004847 Haloacid dehalogenase-like hydrolases. The haloacid dehalogenase-like (HAD) superfamily includes L-2-haloacid dehalogenase, epoxide hydrolase, phosphoserine phosphatase, phosphomannomutase, phosphoglycolate phosphatase, P-type ATPase, and many others...; Region: HAD_like; cl11391 765874004848 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 765874004849 Transcriptional regulators [Transcription]; Region: PurR; COG1609 765874004850 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 765874004851 DNA binding site 765874004852 domain linker motif; other site 765874004853 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors; Region: PBP1_LacI_like_3; cd06279 765874004854 putative dimerization interface; other site 765874004855 putative ligand binding site; other site 765874004856 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 765874004857 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 765874004858 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 765874004859 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 765874004860 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 765874004861 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 765874004862 HIGH motif; other site 765874004863 active site 765874004864 nucleotide binding site; other site 765874004865 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 765874004866 KMSKS motif; other site 765874004867 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 765874004868 tRNA binding surface; other site 765874004869 anticodon binding site; other site 765874004870 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid...; Region: MECDP_synthase; cd00554 765874004871 homotrimer interaction site; other site 765874004872 zinc binding site; other site 765874004873 CDP-binding sites; other site 765874004874 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 765874004875 substrate binding site; other site 765874004876 dimer interface; other site 765874004877 CarD-like/TRCF domain; Region: CarD_TRCF; cl00588 765874004878 flagellar hook protein FlgE, epsilon proteobacterial; Region: flgE_epsilon; TIGR02489 765874004879 DNA repair protein RadA; Provisional; Region: PRK11823 765874004880 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 765874004881 Walker A motif; other site 765874004882 ATP binding site; other site 765874004883 Walker B motif; other site 765874004884 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 765874004885 active site clefts 765874004886 zinc binding site; other site 765874004887 dimer interface; other site 765874004888 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 765874004889 endonuclease III; Region: ENDO3c; smart00478 765874004890 minor groove reading motif; other site 765874004891 helix-hairpin-helix signature motif; other site 765874004892 substrate binding pocket; other site 765874004893 active site 765874004894 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 765874004895 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 765874004896 Clp protease ATP binding subunit; Region: clpC; CHL00095 765874004897 Clp amino terminal domain; Region: Clp_N; pfam02861 765874004898 Clp amino terminal domain; Region: Clp_N; pfam02861 765874004899 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 765874004900 Walker A motif; other site 765874004901 ATP binding site; other site 765874004902 Walker B motif; other site 765874004903 arginine finger; other site 765874004904 UvrB/uvrC motif; Region: UVR; pfam02151 765874004905 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 765874004906 Walker A motif; other site 765874004907 ATP binding site; other site 765874004908 Walker B motif; other site 765874004909 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 765874004910 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 765874004911 putative substrate translocation pore; other site 765874004912 Inosine-uridine preferring nucleoside hydrolase; Region: IU_nuc_hydro; pfam01156 765874004913 nuc_hydro_IU_UC_XIUA: inosine-uridine preferring, xanthosine-inosine-uridine-adenosine-preferring and, uridine-cytidine preferring nucleoside hydrolases. Nucleoside hydrolases cleave the N-glycosidic bond in nucleosides generating ribose and the...; Region: nuc_hydro_IU_UC_XIUA; cd02651 765874004914 active site 765874004915 tetramer interface; other site 765874004916 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 765874004917 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 765874004918 CAAX amino terminal protease family; Region: Abi; cl00558 765874004919 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 765874004920 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-...; Region: LysRS_N; cd04322 765874004921 dimer interface; other site 765874004922 putative anticodon binding site; other site 765874004923 Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three...; Region: LysRS_core; cd00775 765874004924 motif 1; other site 765874004925 active site 765874004926 motif 2; other site 765874004927 motif 3; other site 765874004928 A subgroup of the band 7 domain of flotillin (reggie) like proteins. This subgroup contains proteins similar to stomatin, prohibitin, flotillin, HlfK/C and podicin. Many of these band 7 domain-containing proteins are lipid raft-associated. Individual...; Region: Band_7_2; cd03402 765874004929 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4877 765874004930 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 765874004931 1-pyrroline-5-carboxylate dehydrogenase; Provisional; Region: PRK03137 765874004932 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 765874004933 NAD(P) binding site; other site 765874004934 catalytic residues; other site 765874004935 BCCT family transporter; Region: BCCT; cl00569 765874004936 choline dehydrogenase; Validated; Region: PRK02106 765874004937 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 765874004938 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 765874004939 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 765874004940 pantoate--beta-alanine ligase; Region: panC; TIGR00018 765874004941 active site 765874004942 nucleotide binding site; other site 765874004943 HIGH motif; other site 765874004944 KMSKS motif; other site 765874004945 Protein of unknown function (DUF3180); Region: DUF3180; pfam11377 765874004946 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 765874004947 catalytic center binding site; other site 765874004948 ATP binding site; other site 765874004949 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines...; Region: DHNA_DHNTPE; cd00534 765874004950 homooctamer interface; other site 765874004951 active site 765874004952 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 765874004953 substrate binding pocket; other site 765874004954 dimer interface; other site 765874004955 inhibitor binding site; inhibition site 765874004956 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 765874004957 GTP cyclohydrolase I; Provisional; Region: PLN03044 765874004958 homodecamer interface; other site 765874004959 active site 765874004960 putative catalytic site residues; other site 765874004961 zinc binding site; other site 765874004962 GTP-CH-I/GFRP interaction surface; other site 765874004963 FtsH Extracellular; Region: FtsH_ext; pfam06480 765874004964 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 765874004965 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 765874004966 Walker A motif; other site 765874004967 ATP binding site; other site 765874004968 Walker B motif; other site 765874004969 arginine finger; other site 765874004970 Peptidase family M41; Region: Peptidase_M41; pfam01434 765874004971 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 765874004972 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 765874004973 Ligand Binding Site; other site 765874004974 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl03453 765874004975 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 765874004976 dimer interface; other site 765874004977 substrate binding site; other site 765874004978 metal binding sites; metal-binding site 765874004979 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 765874004980 active site residue 765874004981 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 765874004982 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 765874004983 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 765874004984 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 765874004985 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 765874004986 acetyl-CoA synthetase; Provisional; Region: PTZ00237 765874004987 Phosphopantetheine attachment site; Region: PP-binding; cl09936 765874004988 non-ribosomal peptide synthetase terminal domain of unknown function; Region: NRPS_term_dom; TIGR02353 765874004989 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 765874004990 putative trimer interface; other site 765874004991 putative CoA binding site; other site 765874004992 Left-handed parallel beta-Helix (LbetaH or LbH) domain: The alignment contains 5 turns, each containing three imperfect tandem repeats of a hexapeptide repeat motif (X-[STAV]-X-[LIV]-[GAED]-X). Proteins containing hexapeptide repeats are often enzymes...; Region: LbetaH; cl00160 765874004993 putative trimer interface; other site 765874004994 putative CoA binding site; other site 765874004995 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 765874004996 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 765874004997 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 765874004998 ring oligomerisation interface; other site 765874004999 ATP/Mg binding site; other site 765874005000 stacking interactions; other site 765874005001 hinge regions; other site 765874005002 Peptidase dimerization domain; Region: M20_dimer; cl09126 765874005003 Acetylornithine deacetylase/Succinyl-diaminopimelate desuccinylase and related deacylases [Amino acid transport and metabolism]; Region: ArgE; COG0624 765874005004 potential frameshift: common BLAST hit: gi|38232899|ref|NP_938666.1| putative surface-anchored membrane protein 765874005005 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12644 765874005006 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 765874005007 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 765874005008 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 765874005009 Domain related to MnhB subunit of Na+/H+ antiporter; Region: MnhB; cl00676 765874005010 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 765874005011 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12665 765874005012 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 765874005013 Na+/H+ ion antiporter subunit; Region: MNHE; cl00807 765874005014 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 765874005015 Na+/H+ antiporter subunit; Region: PhaG_MnhG_YufB; cl00583 765874005016 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 765874005017 Glutamate-cysteine ligase family 2(GCS2); Region: GCS2; cl00954 765874005018 uncharacterized enzyme; Region: gshA_cyan_rel; TIGR02050 765874005019 Protein of unknown function (DUF3263); Region: DUF3263; pfam11662 765874005020 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(...; Region: Pep_deformylase; cd00487 765874005021 active site 765874005022 catalytic residues; other site 765874005023 metal-binding site 765874005024 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 765874005025 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 765874005026 Endonuclease/Exonuclease/phosphatase family; Region: Exo_endo_phos; cl00490 765874005027 cardiolipin synthetase; Reviewed; Region: cls; PRK01642 765874005028 Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of...; Region: PLDc; cd00138 765874005029 active site 765874005030 signature motif; other site 765874005031 Phospholipase D. Active site motifs; The PLD superfamily includes enzymes involved in signal transduction, lipid biosynthesis, endonucleases and open reading frames in pathogenic viruses and bacteria. PLD hydrolyzes the terminal phosphodiester bond of...; Region: PLDc; cd00138 765874005032 active site 765874005033 signature motif; other site 765874005034 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 765874005035 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 765874005036 Walker A/P-loop; other site 765874005037 ATP binding site; other site 765874005038 Q-loop/lid; other site 765874005039 ABC transporter signature motif; other site 765874005040 Walker B; other site 765874005041 D-loop; other site 765874005042 H-loop/switch region; other site 765874005043 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or...; Region: Nudix_Hydrolase; cl00447 765874005044 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 765874005045 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and...; Region: PBPb; cd00134 765874005046 substrate binding pocket; other site 765874005047 membrane-bound complex binding site; other site 765874005048 hinge residues; other site 765874005049 Catalytic domain of Protein Kinases; Region: PKc; cd00180 765874005050 active site 765874005051 ATP binding site; other site 765874005052 substrate binding site; other site 765874005053 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 765874005054 activation loop (A-loop); other site 765874005055 acetate kinase; Reviewed; Region: PRK12440 765874005056 Acetokinase family; Region: Acetate_kinase; cl01029 765874005057 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 765874005058 ferredoxin-NADP+ reductase; Region: PLN02852 765874005059 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00443 765874005060 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins...; Region: HNHc; cd00085 765874005061 active site 765874005062 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 765874005063 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; cl03087 765874005064 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 765874005065 Disulfide bond formation protein DsbB; Region: DsbB; cl00649 765874005066 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing...; Region: TlpA_like_family; cd02966 765874005067 catalytic residues; other site 765874005068 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 765874005069 ResB-like family; Region: ResB; pfam05140 765874005070 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 765874005071 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 765874005072 TPR motif; other site 765874005073 binding surface 765874005074 cytochrome c552; Provisional; Region: nrfA; cl10556 765874005075 Cytochrome c552; Region: Cytochrom_C552; pfam02335 765874005076 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl09485 765874005077 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 765874005078 adenylosuccinate synthetase; Provisional; Region: PRK01117 765874005079 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the r-...; Region: AdSS; cd03108 765874005080 GDP-binding site; other site 765874005081 ACT binding site; other site 765874005082 IMP binding site; other site 765874005083 Predicted membrane protein [Function unknown]; Region: COG4129 765874005084 Predicted membrane protein [Function unknown]; Region: COG4129 765874005085 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 765874005086 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 765874005087 Walker A/P-loop; other site 765874005088 ATP binding site; other site 765874005089 Q-loop/lid; other site 765874005090 ABC transporter signature motif; other site 765874005091 Walker B; other site 765874005092 D-loop; other site 765874005093 H-loop/switch region; other site 765874005094 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 765874005095 Collagen-binding protein B domain, mediates bacterial adherence to collagen; the primary sequence has a non-repetitive, collagen-binding A region, followed by the repetitive B region; the B region has one to four 23 kDa repeat units (B1-B4). The B...; Region: CollagenBindB; cl14619 765874005096 Collagen-binding protein B domain, mediates bacterial adherence to collagen; the primary sequence has a non-repetitive, collagen-binding A region, followed by the repetitive B region; the B region has one to four 23 kDa repeat units (B1-B4). The B...; Region: CollagenBindB; cl14619 765874005097 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 765874005098 tagatose-bisphosphate aldolase; Reviewed; Region: gatY; PRK09195 765874005099 active site 765874005100 intersubunit interface; other site 765874005101 zinc binding site; other site 765874005102 Na+ binding site; other site 765874005103 Glycosyl hydrolase family 76; Region: Glyco_hydro_76; cl01996 765874005104 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 765874005105 Phosphoribosyl transferase domain; Region: Pribosyltran; cl00309 765874005106 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 765874005107 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but...; Region: TST_Repeat_1; cd01448 765874005108 active site residue 765874005109 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 765874005110 active site residue 765874005111 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 765874005112 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 765874005113 Sortase C (SrtC) or subfamily-3 sortases are membrane cysteine transpeptidases found in Gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_C_3; cd05827 765874005114 active site 765874005115 catalytic site; other site 765874005116 Collagen-binding protein B domain, mediates bacterial adherence to collagen; the primary sequence has a non-repetitive, collagen-binding A region, followed by the repetitive B region; the B region has one to four 23 kDa repeat units (B1-B4). The B...; Region: CollagenBindB; cl14619 765874005117 Sortase C (SrtC) or subfamily-3 sortases are membrane cysteine transpeptidases found in Gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_C_3; cd05827 765874005118 active site 765874005119 catalytic site; other site 765874005120 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 765874005121 Clp amino terminal domain; Region: Clp_N; pfam02861 765874005122 Clp amino terminal domain; Region: Clp_N; pfam02861 765874005123 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 765874005124 Walker A motif; other site 765874005125 ATP binding site; other site 765874005126 Walker B motif; other site 765874005127 arginine finger; other site 765874005128 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes...; Region: AAA; cd00009 765874005129 Walker A motif; other site 765874005130 ATP binding site; other site 765874005131 Walker B motif; other site 765874005132 arginine finger; other site 765874005133 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 765874005134 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 765874005135 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 765874005136 Walker A/P-loop; other site 765874005137 ATP binding site; other site 765874005138 Q-loop/lid; other site 765874005139 ABC transporter signature motif; other site 765874005140 Walker B; other site 765874005141 D-loop; other site 765874005142 H-loop/switch region; other site 765874005143 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; cl12073 765874005144 Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron...; Region: FNR_like; cl06868 765874005145 FAD binding pocket; other site 765874005146 conserved FAD binding motif; other site 765874005147 phosphate binding motif; other site 765874005148 beta-alpha-beta structure motif; other site 765874005149 NAD binding pocket; other site 765874005150 Predicted outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG4932 765874005151 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 765874005152 Predicted permease; Region: FtsX; cl11418 765874005153 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 765874005154 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 765874005155 Walker A/P-loop; other site 765874005156 ATP binding site; other site 765874005157 Q-loop/lid; other site 765874005158 ABC transporter signature motif; other site 765874005159 Walker B; other site 765874005160 D-loop; other site 765874005161 H-loop/switch region; other site 765874005162 macrolide transporter subunit MacA; Provisional; Region: PRK11578 765874005163 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 765874005164 Nitrilase superfamily, including nitrile- or amide-hydrolyzing enzymes and amide-condensing enzymes; Region: nitrilase; cl11424 765874005165 active site 765874005166 catalytic triad; other site 765874005167 dimer interface; other site 765874005168 Alpha/beta hydrolase of unknown function (DUF1023); Region: DUF1023; pfam06259 765874005169 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 765874005170 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD3; cd08297 765874005171 NAD binding site; other site 765874005172 substrate binding site; other site 765874005173 catalytic Zn binding site; other site 765874005174 tetramer interface; other site 765874005175 structural Zn binding site; other site 765874005176 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 765874005177 NAD(P) binding site; other site 765874005178 catalytic residues; other site 765874005179 Endo-beta-N-acetylglucosaminidases are bacterial chitinases that hydrolyze the chitin core of various asparagine (N)-linked glycans and glycoproteins. The endo-beta-N-acetylglucosaminidases have a glycosyl hydrolase family 18 (GH18) catalytic domain...; Region: GH18_EndoS-like; cd06542 765874005180 active site 765874005181 Helix-Turn-Helix DNA binding domain of the HspR transcription regulator; Region: HTH_HspR; cd04766 765874005182 DNA binding residues 765874005183 chaperone protein DnaJ; Provisional; Region: PRK14279 765874005184 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of...; Region: DnaJ; cd06257 765874005185 HSP70 interaction site; other site 765874005186 DnaJ C terminal region; Region: DnaJ_C; pfam01556 765874005187 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 765874005188 dimer interface; other site 765874005189 hsp70 (ATPase domain) interactions; other site 765874005190 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 765874005191 potential frameshift: common BLAST hit: gi|38234574|ref|NP_940341.1| putative surface-anchored membrane protein 765874005192 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; cd00198 765874005193 metal ion-dependent adhesion site (MIDAS); other site 765874005194 Sortase C (SrtC) or subfamily-3 sortases are membrane cysteine transpeptidases found in Gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the...; Region: Sortase_C_3; cd05827 765874005195 active site 765874005196 catalytic site; other site 765874005197 Domain of unknown function DUF20; Region: UPF0118; cl00465 765874005198 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 765874005199 Predicted ATPase involved in cell division [Cell division and chromosome partitioning]; Region: FtsE; COG2884 765874005200 Walker A/P-loop; other site 765874005201 ATP binding site; other site 765874005202 Q-loop/lid; other site 765874005203 ABC transporter signature motif; other site 765874005204 Walker B; other site 765874005205 D-loop; other site 765874005206 H-loop/switch region; other site 765874005207 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 765874005208 Q-loop/lid; other site 765874005209 ABC transporter signature motif; other site 765874005210 Walker B; other site 765874005211 D-loop; other site 765874005212 H-loop/switch region; other site 765874005213 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 765874005214 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 765874005215 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop NTPase; cl09099 765874005216 Walker A/P-loop; other site 765874005217 ATP binding site; other site 765874005218 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cl00427 765874005219 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 765874005220 Phosphate transporter family; Region: PHO4; cl00396 765874005221 Phosphate transporter family; Region: PHO4; cl00396 765874005222 ferredoxin-NADP+ reductase; Region: PLN02852 765874005223 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 765874005224 Cysteine-rich domain; Region: CCG; pfam02754 765874005225 Cysteine-rich domain; Region: CCG; pfam02754 765874005226 Domain of unknown function (DUF1707); Region: DUF1707; pfam08044 765874005227 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 765874005228 dimerization interface; other site 765874005229 putative DNA binding site; other site 765874005230 putative Zn2+ binding site; other site 765874005231 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 765874005232 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 765874005233 Walker A/P-loop; other site 765874005234 ATP binding site; other site 765874005235 Q-loop/lid; other site 765874005236 ABC transporter signature motif; other site 765874005237 Walker B; other site 765874005238 D-loop; other site 765874005239 H-loop/switch region; other site 765874005240 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist...; Region: TM_ABC_iron-siderophores_like; cl00462 765874005241 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist...; Region: TM_ABC_iron-siderophores_like; cd06550 765874005242 putative PBP binding regions; other site 765874005243 ABC-ATPase subunit interface; other site 765874005244 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 765874005245 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface...; Region: TroA-like; cl00262 765874005246 intersubunit interface; other site 765874005247 UreD urease accessory protein; Region: UreD; cl00530 765874005248 Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras; Region: Ras_like_GTPase; cl10444 765874005249 UreF; Region: UreF; cl00531 765874005250 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 765874005251 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The C-...; Region: UreE; cd00571 765874005252 dimer interface; other site 765874005253 catalytic residues; other site 765874005254 urease subunit alpha; Reviewed; Region: ureC; PRK13207 765874005255 Urease alpha-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, fungi and plants. Their primary role is to allow the use of...; Region: Urease_alpha; cd00375 765874005256 subunit interactions; other site 765874005257 active site 765874005258 flap region; other site 765874005259 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_beta; cd00407 765874005260 gamma-beta subunit interface; other site 765874005261 alpha-beta subunit interface; other site 765874005262 Urease gamma-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use...; Region: Urease_gamma; cd00390 765874005263 alpha-gamma subunit interface; other site 765874005264 beta-gamma subunit interface; other site 765874005265 EamA-like transporter family; Region: EamA; cl01037 765874005266 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 765874005267 EamA-like transporter family; Region: EamA; cl01037 765874005268 tyrosine aminotransferase, eukaryotic; Region: tyr_amTase_E; TIGR01264 765874005269 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 765874005270 pyridoxal 5'-phosphate binding site; other site 765874005271 homodimer interface; other site 765874005272 catalytic residue; other site 765874005273 YibE/F-like protein; Region: YibE_F; cl02259 765874005274 lysyl-tRNA synthetase; Provisional; Region: lysS; PRK02983 765874005275 Uncharacterized conserved protein (DUF2156); Region: DUF2156; cl12090 765874005276 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-...; Region: LysRS_N; cd04322 765874005277 dimer interface; other site 765874005278 putative anticodon binding site; other site 765874005279 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 765874005280 motif 1; other site 765874005281 dimer interface; other site 765874005282 active site 765874005283 motif 2; other site 765874005284 motif 3; other site 765874005285 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 765874005286 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 765874005287 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 765874005288 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 765874005289 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 765874005290 trimer interface; other site 765874005291 active site 765874005292 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 765874005293 NAD(P) binding site; other site 765874005294 catalytic residues; other site 765874005295 Uncharacterized vancomycin resistance protein [Defense mechanisms]; Region: COG2720 765874005296 Putative peptidoglycan binding domain; Region: PG_binding_4; pfam12229 765874005297 VanW like protein; Region: VanW; pfam04294 765874005298 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 765874005299 Domain of unknown function (DUF3367); Region: DUF3367; pfam11847 765874005300 Predicted acyltransferases [Lipid metabolism]; Region: COG1835; cl00792 765874005301 Acyltransferase family; Region: Acyl_transf_3; pfam01757 765874005302 Protein of unknown function (DUF3068); Region: DUF3068; pfam11271 765874005303 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 765874005304 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 765874005305 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 765874005306 S-adenosylmethionine binding site; other site 765874005307 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 765874005308 Phosphoenolpyruvate carboxykinase; Region: PEPCK; pfam00821 765874005309 active site 765874005310 substrate-binding site; other site 765874005311 metal-binding site 765874005312 GTP binding site; other site 765874005313 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 765874005314 S-adenosylmethionine binding site; other site 765874005315 LabA_like proteins. A well conserved group of bacterial proteins with no defined function. LabA, a member from Synechococcus elongatus PCC 7942, has been shown to play a role in cyanobacterial circadian timing. It is required for negative feedback...; Region: LabA_like; cd06167 765874005316 putative metal binding site; other site 765874005317 Predicted drug exporters of the RND superfamily [General function prediction only]; Region: COG2409 765874005318 Predicted integral membrane protein [Function unknown]; Region: COG0392 765874005319 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 765874005320 Protein of unknown function (DUF3054); Region: DUF3054; pfam11255 765874005321 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 765874005322 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 765874005323 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 765874005324 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 765874005325 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl00513 765874005326 Phosphopantetheine attachment site; Region: PP-binding; cl09936 765874005327 Polyketide synthase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3321 765874005328 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 765874005329 active site 765874005330 Acyl transferase domain; Region: Acyl_transf_1; cl08282 765874005331 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 765874005332 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 765874005333 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07769 765874005334 Acyl-protein synthetase, LuxE; Region: LuxE; cl10450 765874005335 Cutinase; Region: Cutinase; pfam01083 765874005336 Putative esterase; Region: Esterase; pfam00756 765874005337 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 765874005338 Uncharacterized protein potentially involved in peptidoglycan biosynthesis [Cell envelope biogenesis, outer membrane]; Region: COG5479 765874005339 LGFP repeat; Region: LGFP; pfam08310 765874005340 LGFP repeat; Region: LGFP; pfam08310 765874005341 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 765874005342 Predicted esterase [General function prediction only]; Region: COG0627 765874005343 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 765874005344 UbiA prenyltransferase family; Region: UbiA; cl00337 765874005345 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 765874005346 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 765874005347 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 765874005348 Domain of unknown function (DUF477); Region: DUF477; cl01535 765874005349 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 765874005350 active site 765874005351 Glycerophosphodiester phosphodiesterase domain of putative Silicibacter pomeroyi glycerophosphodiester phosphodiesterase and similar proteins; Region: GDPD_SpGDE_like; cd08567 765874005352 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 765874005353 active site 765874005354 catalytic site; other site 765874005355 metal-binding site 765874005356 sn-glycerol-3-phosphate transporter; Provisional; Region: glpT; PRK11273 765874005357 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 765874005358 putative substrate translocation pore; other site 765874005359 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 765874005360 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 765874005361 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 765874005362 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 765874005363 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 765874005364 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 765874005365 Walker A/P-loop; other site 765874005366 ATP binding site; other site 765874005367 Q-loop/lid; other site 765874005368 ABC transporter signature motif; other site 765874005369 Walker B; other site 765874005370 D-loop; other site 765874005371 H-loop/switch region; other site 765874005372 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist...; Region: TM_ABC_iron-siderophores_like; cl00462 765874005373 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist...; Region: TM_ABC_iron-siderophores_like; cd06550 765874005374 putative PBP binding regions; other site 765874005375 ABC-ATPase subunit interface; other site 765874005376 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 765874005377 Periplasmic binding protein YvrC. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria and archaea. They belong to the TroA superfamily of periplasmic metal binding proteins that share a distinct...; Region: YvrC; cd01143 765874005378 putative binding site residues; other site 765874005379 Uncharacterized protein potentially involved in peptidoglycan biosynthesis [Cell envelope biogenesis, outer membrane]; Region: COG5479 765874005380 Peptidoglycan recognition proteins (PGRPs) are pattern recognition receptors that bind, and in certain cases, hydrolyze peptidoglycans (PGNs) of bacterial cell walls. PGRPs have been divided into three classes: short PGRPs (PGRP-S), that are small (20...; Region: PGRP; cd06583 765874005381 amidase catalytic site; other site 765874005382 Zn binding residues; other site 765874005383 substrate binding site; other site 765874005384 LGFP repeat; Region: LGFP; pfam08310 765874005385 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 765874005386 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 765874005387 active site 765874005388 motif I; other site 765874005389 motif II; other site 765874005390 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 765874005391 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 765874005392 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 765874005393 putative acyl-acceptor binding pocket; other site 765874005394 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 765874005395 seryl-tRNA synthetase; Provisional; Region: PRK05431 765874005396 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 765874005397 dimer interface; other site 765874005398 active site 765874005399 motif 1; other site 765874005400 motif 2; other site 765874005401 motif 3; other site 765874005402 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 765874005403 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 765874005404 DNA binding site 765874005405 UTRA domain; Region: UTRA; cl06649 765874005406 Domain of unknown function (DUF1025); Region: DUF1025; cl01577 765874005407 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 765874005408 catalytic core; other site 765874005409 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 765874005410 Prephenate dehydratase; Region: PDT; pfam00800 765874005411 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 765874005412 putative L-Phe binding site; other site 765874005413 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cl11426 765874005414 CAAX amino terminal protease family; Region: Abi; cl00558 765874005415 Cell envelope-related transcriptional attenuator domain; Region: LytR_cpsA_psr; cl00581 765874005416 Htaa; Region: HtaA; pfam04213 765874005417 potential frameshift: common BLAST hit: gi|38234787|ref|NP_940554.1| putative sodium/alanine symporter 765874005418 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 765874005419 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 765874005420 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases; Region: GDPD_like_2; cd08582 765874005421 Glycerophosphoryl diester phosphodiesterase family; Region: GDPD; pfam03009 765874005422 putative active site; other site 765874005423 catalytic site; other site 765874005424 putative metal binding site; other site 765874005425 Nucleoside permease [Nucleotide transport and metabolism]; Region: NupC; COG1972 765874005426 Na+ dependent nucleoside transporter N-terminus; Region: Nucleos_tra2_N; pfam01773 765874005427 Nucleoside recognition; Region: Gate; cl00486 765874005428 Na+ dependent nucleoside transporter C-terminus; Region: Nucleos_tra2_C; pfam07662 765874005429 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 765874005430 active site 765874005431 catalytic motif; other site 765874005432 Zn binding site; other site 765874005433 thymidine phosphorylase; Reviewed; Region: deoA; PRK05820 765874005434 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 765874005435 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 765874005436 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; pfam07831 765874005437 L-lactate dehydrogenase; Reviewed; Region: ldh; PRK00066 765874005438 L-2-hydroxyisocapronate dehydrogenases and some bacterial L-lactate dehydrogenases; Region: HicDH_like; cd05291 765874005439 tetramer (dimer of dimers) interface; other site 765874005440 NAD binding site; other site 765874005441 dimer interface; other site 765874005442 substrate binding site; other site 765874005443 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 765874005444 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 765874005445 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 765874005446 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 765874005447 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 765874005448 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 765874005449 putative substrate translocation pore; other site 765874005450 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 765874005451 Abi-like protein; Region: Abi_2; cl01988 765874005452 potential frameshift: common BLAST hit: gi|38234806|ref|NP_940573.1| sugar phosphate antiporter 765874005453 sugar phosphate antiporter; Reviewed; Region: uhpT; PRK09556 765874005454 sugar phosphate antiporter; Reviewed; Region: uhpT; PRK09556 765874005455 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 765874005456 MazG nucleotide pyrophosphohydrolase domain; Region: MazG; cl00737 765874005457 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 765874005458 Predicted nuclease (RecB family) [General function prediction only]; Region: COG2251 765874005459 Lsr2; Region: Lsr2; pfam11774 765874005460 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 765874005461 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 765874005462 active site 765874005463 phosphorylation site 765874005464 intermolecular recognition site; other site 765874005465 dimerization interface; other site 765874005466 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors...; Region: LuxR_C_like; cd06170 765874005467 DNA binding residues 765874005468 dimerization interface; other site 765874005469 Histidine kinase; Region: HisKA_3; pfam07730 765874005470 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 765874005471 ATP binding site; other site 765874005472 Mg2+ binding site; other site 765874005473 G-X-G motif; other site 765874005474 Domain of unknown function (DUF2020); Region: DUF2020; pfam09449 765874005475 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...; Region: Sortase_D_5; cd05830 765874005476 active site 765874005477 catalytic site; other site 765874005478 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 765874005479 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 765874005480 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 765874005481 Uncharacterized ACR, YhhQ family COG1738; Region: DUF165; cl00756 765874005482 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 765874005483 Ligand Binding Site; other site 765874005484 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 765874005485 Ligand Binding Site; other site 765874005486 PseudoU_synth: Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). Pseudouridine synthases contains the RsuA/RluD, TruA, TruB and TruD families. This group consists of...; Region: PseudoU_synth; cl00130 765874005487 active site 765874005488 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 765874005489 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 765874005490 Walker A/P-loop; other site 765874005491 ATP binding site; other site 765874005492 Q-loop/lid; other site 765874005493 ABC transporter signature motif; other site 765874005494 Walker B; other site 765874005495 D-loop; other site 765874005496 H-loop/switch region; other site 765874005497 Predicted transcriptional regulators [Transcription]; Region: COG1725 765874005498 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 765874005499 DNA binding site 765874005500 LabA_like proteins. A well conserved group of bacterial proteins with no defined function. LabA, a member from Synechococcus elongatus PCC 7942, has been shown to play a role in cyanobacterial circadian timing. It is required for negative feedback...; Region: LabA_like; cd06167 765874005501 putative metal binding site; other site 765874005502 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 765874005503 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 765874005504 catalytic residues; other site 765874005505 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 765874005506 metal-binding site 765874005507 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 765874005508 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 765874005509 metal-binding site 765874005510 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 765874005511 benzoate transport; Region: 2A0115; TIGR00895 765874005512 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 765874005513 putative substrate translocation pore; other site 765874005514 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 765874005515 replicative DNA helicase; Provisional; Region: PRK05636 765874005516 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 765874005517 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 765874005518 Walker A motif; other site 765874005519 ATP binding site; other site 765874005520 Walker B motif; other site 765874005521 DNA binding loops 765874005522 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 765874005523 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 765874005524 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 765874005525 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 765874005526 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 765874005527 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 765874005528 dimer interface; other site 765874005529 ssDNA binding site; other site 765874005530 tetramer (dimer of dimers) interface; other site 765874005531 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 765874005532 Protein of unknown function (DUF2029); Region: DUF2029; cl09812 765874005533 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 765874005534 Transglycosylase; Region: Transgly; cl07896 765874005535 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01039 765874005536 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cl00088 765874005537 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 765874005538 Ligand Binding Site; other site 765874005539 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 765874005540 Ligand Binding Site; other site 765874005541 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 765874005542 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 765874005543 hypothetical protein; Provisional; Region: PRK00142 765874005544 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 765874005545 active site residue 765874005546 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 765874005547 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 765874005548 Ferritin-like domain; Region: Ferritin; pfam00210 765874005549 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 765874005550 dimerization interface; other site 765874005551 DPS ferroxidase diiron center; other site 765874005552 ion pore; other site 765874005553 Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]; Region: Nei; COG0266 765874005554 N-terminal domain of the actinomycetal Nei1 and related DNA glycosylases; Region: AcNei1_N; cd08970 765874005555 putative DNA binding site; other site 765874005556 catalytic residue; other site 765874005557 putative H2TH interface; other site 765874005558 putative catalytic residues; other site 765874005559 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 765874005560 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 765874005561 YjeF-related protein N-terminus; Region: YjeF_N; cl00318 765874005562 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 765874005563 Carbohydrate kinase; Region: Carb_kinase; pfam01256 765874005564 putative substrate binding site; other site 765874005565 putative ATP binding site; other site 765874005566 VanZ like family; Region: VanZ; cl01971 765874005567 Predicted membrane protein [Function unknown]; Region: COG1511 765874005568 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 765874005569 Predicted membrane protein [Function unknown]; Region: COG1511 765874005570 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 765874005571 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 765874005572 HIGH motif; other site 765874005573 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 765874005574 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 765874005575 KMSKS motif; other site 765874005576 active site 765874005577 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 765874005578 tRNA binding surface; other site 765874005579 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 765874005580 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 765874005581 Walker A/P-loop; other site 765874005582 ATP binding site; other site 765874005583 Q-loop/lid; other site 765874005584 ABC transporter signature motif; other site 765874005585 Walker B; other site 765874005586 D-loop; other site 765874005587 H-loop/switch region; other site 765874005588 putative ABC transporter-associated repeat protein; Region: anch_rpt_wall; TIGR03773 765874005589 actinobacterial surface-anchored protein domain; Region: P_ac_wall_RPT; TIGR03769 765874005590 putative ABC transporter-associated repeat protein; Region: anch_rpt_wall; TIGR03773 765874005591 actinobacterial surface-anchored protein domain; Region: P_ac_wall_RPT; TIGR03769 765874005592 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 765874005593 Histidine kinase; Region: HisKA_3; pfam07730 765874005594 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 765874005595 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 765874005596 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 765874005597 active site 765874005598 phosphorylation site 765874005599 intermolecular recognition site; other site 765874005600 dimerization interface; other site 765874005601 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors...; Region: LuxR_C_like; cd06170 765874005602 DNA binding residues 765874005603 putative ABC transporter-associated repeat protein; Region: anch_rpt_wall; TIGR03773 765874005604 actinobacterial surface-anchored protein domain; Region: P_ac_wall_RPT; TIGR03769 765874005605 putative ABC transporter-associated repeat protein; Region: anch_rpt_wall; TIGR03773 765874005606 actinobacterial surface-anchored protein domain; Region: P_ac_wall_RPT; TIGR03769 765874005607 actinobacterial surface-anchored protein domain; Region: P_ac_wall_RPT; TIGR03769 765874005608 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...; Region: GlcN6P_deaminase; cd01399 765874005609 active site 765874005610 trimer interface; other site 765874005611 allosteric site; other site 765874005612 active site lid 765874005613 hexamer (dimer of trimers) interface; other site 765874005614 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have...; Region: metallo-dependent_hydrolases; cl00281 765874005615 active site 765874005616 N-acetylmannosamine-6-phosphate epimerase (NanE) converts N-acetylmannosamine-6-phosphate to N-acetylglucosamine-6-phosphate. This reaction is part of the pathway that allows the usage of sialic acid as a carbohydrate source. Sialic acids are a family...; Region: NanE; cd04729 765874005617 N-acetylmannosamine-6-phosphate 2-epimerase; Provisional; Region: PRK01130 765874005618 putative active site cavity; other site 765874005619 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 765874005620 ROK family; Region: ROK; cl09121 765874005621 Transcriptional regulators [Transcription]; Region: FadR; COG2186 765874005622 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 765874005623 DNA binding site 765874005624 FCD domain; Region: FCD; cl11656 765874005625 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 765874005626 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 765874005627 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 765874005628 dimer interface; other site 765874005629 conserved gate region; other site 765874005630 putative PBP binding loops; other site 765874005631 ABC-ATPase subunit interface; other site 765874005632 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits...; Region: TM_PBP2; cd06261 765874005633 dimer interface; other site 765874005634 conserved gate region; other site 765874005635 putative PBP binding loops; other site 765874005636 ABC-ATPase subunit interface; other site 765874005637 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 765874005638 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 765874005639 Walker A/P-loop; other site 765874005640 ATP binding site; other site 765874005641 Q-loop/lid; other site 765874005642 ABC transporter signature motif; other site 765874005643 Walker B; other site 765874005644 D-loop; other site 765874005645 H-loop/switch region; other site 765874005646 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 765874005647 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppF; COG1124 765874005648 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 765874005649 Walker A/P-loop; other site 765874005650 ATP binding site; other site 765874005651 Q-loop/lid; other site 765874005652 ABC transporter signature motif; other site 765874005653 Walker B; other site 765874005654 D-loop; other site 765874005655 H-loop/switch region; other site 765874005656 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 765874005657 Dihydrodipicolinate synthase family. A member of the class I aldolases, which use an active-site lysine which stablilzes a reaction intermediate via Schiff base formation, and have TIM beta/alpha barrel fold. The dihydrodipicolinate synthase family...; Region: DHDPS-like; cd00408 765874005658 inhibitor site; inhibition site 765874005659 active site 765874005660 dimer interface; other site 765874005661 catalytic residue; other site 765874005662 Aldose 1-epimerase; Region: Aldose_epim; cl00476 765874005663 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4868; cl02027 765874005664 Domain of unknown function (DUF1846); Region: DUF1846; pfam08903 765874005665 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 765874005666 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 765874005667 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 765874005668 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 765874005669 substrate binding pocket; other site 765874005670 substrate-Mg2+ binding site; other site 765874005671 aspartate-rich region 1; other site 765874005672 aspartate-rich region 2; other site 765874005673 Phytoene dehydrogenase and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG1233 765874005674 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 765874005675 Protein of unknown function (DUF1648); Region: DUF1648; cl01712 765874005676 anthranilate synthase component I; Provisional; Region: PRK13564 765874005677 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 765874005678 chorismate binding enzyme; Region: Chorismate_bind; cl10555 765874005679 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 765874005680 Glutamine amidotransferase class-I; Region: GATase; pfam00117 765874005681 glutamine binding; other site 765874005682 catalytic triad; other site 765874005683 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 765874005684 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 765874005685 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 765874005686 bifunctional indole-3-glycerol phosphate synthase/phosphoribosylanthranilate isomerase; Provisional; Region: PRK09427 765874005687 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 765874005688 active site 765874005689 ribulose/triose binding site; other site 765874005690 phosphate binding site; other site 765874005691 substrate (anthranilate) binding pocket; other site 765874005692 product (indole) binding pocket; other site 765874005693 Phosphoribosylanthranilate isomerase (PRAI) catalyzes the fourth step of the tryptophan biosynthesis, the conversion of N-(5'- phosphoribosyl)-anthranilate (PRA) to 1-(o-carboxyphenylamino)- 1-deoxyribulose 5-phosphate (CdRP). Most PRAIs are monomeric...; Region: PRAI; cd00405 765874005694 active site 765874005695 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 765874005696 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 765874005697 pyridoxal 5'-phosphate binding site; other site 765874005698 catalytic residue; other site 765874005699 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 765874005700 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are...; Region: Tryptophan_synthase_alpha; cd04724 765874005701 substrate binding site; other site 765874005702 active site 765874005703 catalytic residues; other site 765874005704 heterodimer interface; other site 765874005705 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1)...; Region: Rieske; cd03467 765874005706 iron-sulfur cluster; other site 765874005707 [2Fe-2S] cluster binding site; other site 765874005708 Membrane transport protein; Region: Mem_trans; cl09117 765874005709 Branched-chain amino acid transport protein (AzlD); Region: AzlD; cl00735 765874005710 AzlC protein; Region: AzlC; cl00570 765874005711 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 765874005712 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 765874005713 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 765874005714 active site 765874005715 NTP binding site; other site 765874005716 metal binding triad; metal-binding site 765874005717 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 765874005718 Diadenosine hexaphosphate (Ap6A) hydrolase is a member of the Nudix hydrolase superfamily. Ap6A hydrolase specifically hydrolyzes diadenosine polyphosphates, but not ATP or diadenosine triphosphate, and it generates ATP as the product. Ap6A, the most...; Region: Ap6A_hydrolase; cd03673 765874005719 active site 765874005720 Ap6A binding site; other site 765874005721 nudix motif; other site 765874005722 metal-binding site 765874005723 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 765874005724 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 765874005725 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 765874005726 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial...; Region: Sigma70_r4; cl01055 765874005727 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 765874005728 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 765874005729 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 765874005730 catalytic residues; other site 765874005731 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 765874005732 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 765874005733 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 765874005734 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 765874005735 active site 765874005736 metal-binding site 765874005737 ParB-like partition proteins; Region: parB_part; TIGR00180 765874005738 ParB-like nuclease domain; Region: ParBc; cl02129 765874005739 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 765874005740 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following...; Region: ParA; cd02042 765874005741 P-loop; other site 765874005742 Magnesium ion binding site; other site 765874005743 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following...; Region: ParA; cd02042 765874005744 Magnesium ion binding site; other site 765874005745 S-adenosylmethionine-dependent methyltransferases (SAM or AdoMet-MTase), class I; AdoMet-MTases are enzymes that use S-adenosyl-L-methionine (SAM or AdoMet) as a substrate for methyltransfer, creating the product S-adenosyl-L-homocysteine (AdoHcy)...; Region: AdoMet_MTases; cl12011 765874005746 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 765874005747 Domain of unknown function DUF37; Region: DUF37; cl00506 765874005748 Ribonuclease P; Region: Ribonuclease_P; cl00457