-- dump date 20120504_160745 -- class Genbank::misc_feature -- table misc_feature_note -- id note 693978000001 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 693978000002 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 693978000003 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 693978000004 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 693978000005 non-specific DNA binding site [nucleotide binding]; other site 693978000006 salt bridge; other site 693978000007 sequence-specific DNA binding site [nucleotide binding]; other site 693978000008 Cation efflux family; Region: Cation_efflux; cl00316 693978000009 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 693978000010 synthetase active site [active] 693978000011 metal binding site [ion binding]; metal-binding site 693978000012 NTP binding site [chemical binding]; other site 693978000013 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 693978000014 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 693978000015 non-specific DNA binding site [nucleotide binding]; other site 693978000016 salt bridge; other site 693978000017 sequence-specific DNA binding site [nucleotide binding]; other site 693978000018 Protein of unknown function (DUF4240); Region: DUF4240; pfam14024 693978000019 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 693978000020 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; cl16911 693978000021 DpnII restriction endonuclease; Region: DpnII; pfam04556 693978000022 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; cl16911 693978000023 Protein of unknown function (Porph_ging); Region: Porph_ging; cl09903 693978000024 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 693978000025 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 693978000026 Sel1 repeat; Region: Sel1; cl02723 693978000027 Protein of unknown function with HXXEE motif; Region: HXXEE; pfam13787 693978000028 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 693978000029 oligomeric interface; other site 693978000030 putative active site [active] 693978000031 homodimer interface [polypeptide binding]; other site 693978000032 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 693978000033 Plasmid stabilisation system protein; Region: Plasmid_stabil; cl11422 693978000034 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 693978000035 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 693978000036 metal binding triad [ion binding]; metal-binding site 693978000037 TIR domain; Region: TIR_2; cl15770 693978000038 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 693978000039 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 693978000040 Walker A motif; other site 693978000041 ATP binding site [chemical binding]; other site 693978000042 Walker B motif; other site 693978000043 arginine finger; other site 693978000044 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 693978000045 Protein of unknown function (Porph_ging); Region: Porph_ging; cl09903 693978000046 Clp protease; Region: CLP_protease; pfam00574 693978000047 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 693978000048 oligomer interface [polypeptide binding]; other site 693978000049 active site residues [active] 693978000050 DNA primase, catalytic core; Region: dnaG; TIGR01391 693978000051 CHC2 zinc finger; Region: zf-CHC2; cl15369 693978000052 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 693978000053 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 693978000054 active site 693978000055 metal binding site [ion binding]; metal-binding site 693978000056 interdomain interaction site; other site 693978000057 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 693978000058 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 693978000059 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 693978000060 multidrug efflux protein; Reviewed; Region: PRK01766 693978000061 MatE; Region: MatE; cl10513 693978000062 MatE; Region: MatE; cl10513 693978000063 Response regulator receiver domain; Region: Response_reg; pfam00072 693978000064 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 693978000065 active site 693978000066 phosphorylation site [posttranslational modification] 693978000067 intermolecular recognition site; other site 693978000068 dimerization interface [polypeptide binding]; other site 693978000069 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 693978000070 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 693978000071 Walker A motif; other site 693978000072 ATP binding site [chemical binding]; other site 693978000073 Walker B motif; other site 693978000074 arginine finger; other site 693978000075 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, YBL036c-like proteins; Region: PLPDE_III_YBL036c_like; cd00635 693978000076 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 693978000077 catalytic residue [active] 693978000078 Large-conductance mechanosensitive channel, MscL; Region: MscL; cl00860 693978000079 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 693978000080 Prolipoprotein diacylglyceryl transferase; Region: LGT; cl00478 693978000081 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 693978000082 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 693978000083 putative acyl-acceptor binding pocket; other site 693978000084 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 693978000085 putative active site [active] 693978000086 putative CoA binding site [chemical binding]; other site 693978000087 nudix motif; other site 693978000088 metal binding site [ion binding]; metal-binding site 693978000089 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 693978000090 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 693978000091 NAD(P) binding pocket [chemical binding]; other site 693978000092 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 693978000093 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 693978000094 Cation transport protein; Region: TrkH; cl10514 693978000095 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 693978000096 Prephenate dehydrogenase; Region: PDH; pfam02153 693978000097 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 693978000098 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 693978000099 Alanine dehydrogenase/PNT, N-terminal domain; Region: AlaDh_PNT_N; cl15379 693978000100 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 693978000101 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 693978000102 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; cd01610 693978000103 active site 693978000104 lipid A phosphoethanolamine transferase; Reviewed; Region: PRK09598 693978000105 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 693978000106 Sulfatase; Region: Sulfatase; cl10460 693978000107 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 693978000108 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 693978000109 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 693978000110 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 693978000111 Walker A/P-loop; other site 693978000112 ATP binding site [chemical binding]; other site 693978000113 Q-loop/lid; other site 693978000114 ABC transporter signature motif; other site 693978000115 Walker B; other site 693978000116 D-loop; other site 693978000117 H-loop/switch region; other site 693978000118 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 693978000119 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 693978000120 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 693978000121 NeuB family; Region: NeuB; cl00496 693978000122 Methyltransferase domain; Region: Methyltransf_31; pfam13847 693978000123 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 693978000124 S-adenosylmethionine binding site [chemical binding]; other site 693978000125 Protein of unknown function (DUF3822); Region: DUF3822; pfam12864 693978000126 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 693978000127 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 693978000128 NAD(P) binding site [chemical binding]; other site 693978000129 active site 693978000130 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 693978000131 Ligand binding site [chemical binding]; other site 693978000132 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 693978000133 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; cd01985 693978000134 Ligand binding site [chemical binding]; other site 693978000135 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 693978000136 Bifunctional nuclease; Region: DNase-RNase; cl00553 693978000137 nucleoside transporter; Region: 2A0110; TIGR00889 693978000138 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 693978000139 putative substrate translocation pore; other site 693978000140 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 693978000141 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 693978000142 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 693978000143 DNA binding residues [nucleotide binding] 693978000144 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 693978000145 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 693978000146 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 693978000147 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 693978000148 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 693978000149 Uncharacterized conserved protein [Function unknown]; Region: COG1576; cl00679 693978000150 Predicted SPOUT methyltransferase; Region: SPOUT_MTase; pfam02590 693978000151 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cl00065 693978000152 H+ Antiporter protein; Region: 2A0121; TIGR00900 693978000153 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 693978000154 putative substrate translocation pore; other site 693978000155 GH3 auxin-responsive promoter; Region: GH3; cl04006 693978000156 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 693978000157 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 693978000158 CrcB-like protein; Region: CRCB; cl09114 693978000159 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 693978000160 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 693978000161 non-specific DNA binding site [nucleotide binding]; other site 693978000162 salt bridge; other site 693978000163 sequence-specific DNA binding site [nucleotide binding]; other site 693978000164 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 693978000165 active site 693978000166 metal binding site [ion binding]; metal-binding site 693978000167 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 693978000168 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 693978000169 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 693978000170 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 693978000171 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl15761 693978000172 Mu-like prophage protein [General function prediction only]; Region: COG3941 693978000173 chromosome segregation protein; Provisional; Region: PRK03918 693978000174 Abi-like protein; Region: Abi_2; cl01988 693978000175 AntA/AntB antirepressor; Region: AntA; cl01430 693978000176 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 693978000177 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 693978000178 Cytochrome c; Region: Cytochrom_C; cl11414 693978000179 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 693978000180 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 693978000181 Phage terminase large subunit; Region: Terminase_3; cl12054 693978000182 Terminase-like family; Region: Terminase_6; pfam03237 693978000183 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 693978000184 Ligand Binding Site [chemical binding]; other site 693978000185 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 693978000186 Protein of unknown function (DUF2693); Region: DUF2693; pfam10902 693978000187 AntA/AntB antirepressor; Region: AntA; cl01430 693978000188 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 693978000189 BRO family, N-terminal domain; Region: Bro-N; cl10591 693978000190 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria and archaea; Region: NTP-PPase_u3; cd11540 693978000191 putative metal binding site [ion binding]; other site 693978000192 Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide; Region: AANH_like; cl00292 693978000193 Ligand Binding Site [chemical binding]; other site 693978000194 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; cl16911 693978000195 Conserved phage C-terminus (Phg_2220_C); Region: Phg_2220_C; cl09752 693978000196 YqaJ-like viral recombinase domain; Region: YqaJ; cl09232 693978000197 ERF superfamily; Region: ERF; pfam04404 693978000198 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 693978000199 lysine-specific histone demethylase 1 homolog; Region: PLN02328 693978000200 ribosome recycling factor; Reviewed; Region: frr; PRK00083 693978000201 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 693978000202 hinge region; other site 693978000203 UMP kinase (UMPK)-Ec, the microbial/chloroplast uridine monophosphate kinase (uridylate kinase) enzyme that catalyzes UMP phosphorylation and plays a key role in pyrimidine nucleotide biosynthesis; regulation of this process is via feed-back control and...; Region: AAK_UMPK-PyrH-Ec; cd04254 693978000204 putative nucleotide binding site [chemical binding]; other site 693978000205 uridine monophosphate binding site [chemical binding]; other site 693978000206 homohexameric interface [polypeptide binding]; other site 693978000207 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 693978000208 RNA binding site [nucleotide binding]; other site 693978000209 active site 693978000210 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 693978000211 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 693978000212 amino acid transporter; Region: 2A0306; TIGR00909 693978000213 Spore germination protein; Region: Spore_permease; cl15802 693978000214 Spore germination protein; Region: Spore_permease; cl15802 693978000215 FlgD Ig-like domain; Region: FlgD_ig; cl15790 693978000216 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 693978000217 active site pocket [active] 693978000218 oxyanion hole [active] 693978000219 catalytic triad [active] 693978000220 active site nucleophile [active] 693978000221 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 693978000222 active site 693978000223 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 693978000224 DnaA N-terminal domain; Region: DnaA_N; pfam11638 693978000225 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 693978000226 Walker A motif; other site 693978000227 ATP binding site [chemical binding]; other site 693978000228 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 693978000229 Walker B motif; other site 693978000230 arginine finger; other site 693978000231 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 693978000232 DnaA box-binding interface [nucleotide binding]; other site 693978000233 Low molecular weight phosphatase family; Region: LMWPc; cd00115 693978000234 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 693978000235 active site 693978000236 Predicted methyltransferases [General function prediction only]; Region: COG0313 693978000237 Rrf2 family protein; Region: rrf2_super; TIGR00738 693978000238 Helix-turn-helix domains; Region: HTH; cl00088 693978000239 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 693978000240 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 693978000241 putative DNA binding site [nucleotide binding]; other site 693978000242 putative Zn2+ binding site [ion binding]; other site 693978000243 AsnC family; Region: AsnC_trans_reg; pfam01037 693978000244 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 693978000245 Family of unknown function (DUF490); Region: DUF490; pfam04357 693978000246 UGMP family protein; Validated; Region: PRK09604 693978000247 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 693978000248 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1385; cl00611 693978000249 RNA methyltransferase; Region: Methyltrans_RNA; pfam04452 693978000250 Bacitracin resistance protein BacA; Region: BacA; cl00858 693978000251 Protein of unknown function (DUF3098); Region: DUF3098; pfam11297 693978000252 FtsX-like permease family; Region: FtsX; cl15850 693978000253 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 693978000254 FtsX-like permease family; Region: FtsX; cl15850 693978000255 exodeoxyribonuclease X; Provisional; Region: PRK07983 693978000256 exodeoxyribonuclease X; Provisional; Region: PRK07983 693978000257 Isochorismatase family; Region: Isochorismatase; pfam00857 693978000258 Nicotinamidase_ related amidohydrolases. Cysteine hydrolases of unknown function that share the catalytic triad with other amidohydrolases, like nicotinamidase, which converts nicotinamide to nicotinic acid and ammonia; Region: nicotinamidase_related; cd01014 693978000259 catalytic triad [active] 693978000260 conserved cis-peptide bond; other site 693978000261 NAD-dependent deacetylase; Provisional; Region: PRK00481 693978000262 SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which...; Region: SIRT5_Af1_CobB; cd01412 693978000263 NAD+ binding site [chemical binding]; other site 693978000264 substrate binding site [chemical binding]; other site 693978000265 Zn binding site [ion binding]; other site 693978000266 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 693978000267 Helix-turn-helix domains; Region: HTH; cl00088 693978000268 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 693978000269 FeoA domain; Region: FeoA; cl00838 693978000270 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 693978000271 magnesium/nickel/cobalt transporter CorA; Provisional; Region: PRK11085; cl00459 693978000272 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 693978000273 dihydrodipicolinate synthase; Region: dapA; TIGR00674 693978000274 dimer interface [polypeptide binding]; other site 693978000275 active site 693978000276 catalytic residue [active] 693978000277 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 693978000278 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 693978000279 starch binding outer membrane protein SusD; Region: SusD; cd08977 693978000280 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 693978000281 Uncharacterized protein related to the periplasmic component of the Tol biopolymer transport system [Function unknown]; Region: COG4946 693978000282 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 693978000283 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 693978000284 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 693978000285 Periplasmic protease [Cell envelope biogenesis, outer membrane]; Region: Prc; COG0793 693978000286 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 693978000287 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 693978000288 protein binding site [polypeptide binding]; other site 693978000289 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 693978000290 Domain interface; other site 693978000291 Peptide binding site; other site 693978000292 Active site tetrad [active] 693978000293 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 693978000294 DDE superfamily endonuclease; Region: DDE_4; cl15789 693978000295 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 693978000296 Site-specific recombinase; Region: SpecificRecomb; cl15411 693978000297 Transglycosylase; Region: Transgly; cl07896 693978000298 Predicted phosphohydrolases [General function prediction only]; Region: COG1408 693978000299 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 693978000300 putative active site [active] 693978000301 putative metal binding site [ion binding]; other site 693978000302 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 693978000303 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 693978000304 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 693978000305 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 693978000306 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 693978000307 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 693978000308 tetramer interface [polypeptide binding]; other site 693978000309 heme binding pocket [chemical binding]; other site 693978000310 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 693978000311 DDE superfamily endonuclease; Region: DDE_4; cl15789 693978000312 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 693978000313 Protein of unknown function (Porph_ging); Region: Porph_ging; cl09903 693978000314 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 693978000315 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 693978000316 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 693978000317 dimer interface [polypeptide binding]; other site 693978000318 active site 693978000319 CoA binding pocket [chemical binding]; other site 693978000320 Membrane protein of unknown function; Region: DUF360; cl00850 693978000321 IgA Peptidase M64; Region: Peptidase_M64; pfam09471 693978000322 GTP-binding protein YchF; Reviewed; Region: PRK09601 693978000323 YchF GTPase; Region: YchF; cd01900 693978000324 G1 box; other site 693978000325 GTP/Mg2+ binding site [chemical binding]; other site 693978000326 Switch I region; other site 693978000327 G2 box; other site 693978000328 Switch II region; other site 693978000329 G3 box; other site 693978000330 G4 box; other site 693978000331 G5 box; other site 693978000332 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 693978000333 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 693978000334 Enoyl-(Acyl carrier protein) reductase; Region: adh_short_C2; pfam13561 693978000335 NAD(P) binding site [chemical binding]; other site 693978000336 active site 693978000337 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 693978000338 peptidyl-prolyl cis-trans isomerase B (rotamase B); Provisional; Region: PRK10791 693978000339 active site 693978000340 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; cl11587 693978000341 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 693978000342 Helix-turn-helix domains; Region: HTH; cl00088 693978000343 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 693978000344 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 693978000345 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 693978000346 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 693978000347 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 693978000348 substrate binding site [chemical binding]; other site 693978000349 oxyanion hole (OAH) forming residues; other site 693978000350 trimer interface [polypeptide binding]; other site 693978000351 acetyl-CoA acetyltransferase; Provisional; Region: PRK07661 693978000352 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 693978000353 dimer interface [polypeptide binding]; other site 693978000354 active site 693978000355 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 693978000356 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 693978000357 active site 693978000358 Protein of unknown function (DUF2400); Region: DUF2400; cl09884 693978000359 NTPase/HAM1. This family consists of the HAM1 protein and pyrophosphate-releasing xanthosine/ inosine triphosphatase. HAM1 protects the cell against mutagenesis by the base analog 6-N-hydroxylaminopurine (HAP) in E. Coli and S. cerevisiae. A...; Region: HAM1; cd00515 693978000360 active site 693978000361 dimerization interface [polypeptide binding]; other site 693978000362 adenylate kinase; Reviewed; Region: adk; PRK00279 693978000363 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 693978000364 AMP-binding site [chemical binding]; other site 693978000365 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 693978000366 GTPase CgtA; Reviewed; Region: obgE; PRK12299 693978000367 GTP1/OBG; Region: GTP1_OBG; pfam01018 693978000368 Obg GTPase; Region: Obg; cd01898 693978000369 G1 box; other site 693978000370 GTP/Mg2+ binding site [chemical binding]; other site 693978000371 Switch I region; other site 693978000372 G2 box; other site 693978000373 G3 box; other site 693978000374 Switch II region; other site 693978000375 G4 box; other site 693978000376 G5 box; other site 693978000377 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 693978000378 active site 693978000379 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 693978000380 FAD binding domain; Region: FAD_binding_4; pfam01565 693978000381 UbiA prenyltransferase family; Region: UbiA; cl00337 693978000382 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 693978000383 ligand binding site [chemical binding]; other site 693978000384 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 693978000385 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 693978000386 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 693978000387 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14961 693978000388 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 693978000389 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 693978000390 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 693978000391 nudix motif; other site 693978000392 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 693978000393 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 693978000394 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 693978000395 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 693978000396 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 693978000397 Peptidase C25 family N-terminal domain, found in Arg-gingipain (Rgp), Lys-gingipain (Kgp) and related proteins; Region: Peptidase_C25_N; cd02258 693978000398 active site 693978000399 FlgD Ig-like domain; Region: FlgD_ig; cl15790 693978000400 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 693978000401 Uncharacterized conserved protein [Function unknown]; Region: COG1912 693978000402 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 693978000403 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 693978000404 ABC-2 type transporter; Region: ABC2_membrane; cl11417 693978000405 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 693978000406 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 693978000407 putative ADP-binding pocket [chemical binding]; other site 693978000408 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 693978000409 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 693978000410 ATP binding site [chemical binding]; other site 693978000411 putative Mg++ binding site [ion binding]; other site 693978000412 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 693978000413 nucleotide binding region [chemical binding]; other site 693978000414 ATP-binding site [chemical binding]; other site 693978000415 RQC domain; Region: RQC; cl09632 693978000416 HRDC domain; Region: HRDC; cl02578 693978000417 KpsF/GutQ family protein; Region: kpsF; TIGR00393 693978000418 KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose...; Region: SIS_Kpsf; cd05014 693978000419 putative active site [active] 693978000420 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with KpsF/GutQ domains in the API [A5P (D-arabinose 5-phosphate) isomerase] protein. These APIs catalyze the conversion of the pentose pathway...; Region: CBS_pair_KpsF_GutQ_assoc; cd04604 693978000421 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl15769 693978000422 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 693978000423 catalytic residues [active] 693978000424 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 693978000425 Peroxiredoxin (PRX) family, Typical 2-Cys PRX subfamily; PRXs are thiol-specific antioxidant (TSA) proteins, which confer a protective role in cells through its peroxidase activity by reducing hydrogen peroxide, peroxynitrite, and organic hydroperoxides; Region: PRX_Typ2cys; cd03015 693978000426 dimer interface [polypeptide binding]; other site 693978000427 decamer (pentamer of dimers) interface [polypeptide binding]; other site 693978000428 catalytic triad [active] 693978000429 peroxidatic and resolving cysteines [active] 693978000430 aspartate aminotransferase; Provisional; Region: PRK05764 693978000431 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 693978000432 pyridoxal 5'-phosphate binding site [chemical binding]; other site 693978000433 homodimer interface [polypeptide binding]; other site 693978000434 catalytic residue [active] 693978000435 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 693978000436 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 693978000437 ligand binding site [chemical binding]; other site 693978000438 flexible hinge region; other site 693978000439 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 693978000440 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 693978000441 trmE is a tRNA modification GTPase; Region: trmE; cd04164 693978000442 G1 box; other site 693978000443 GTP/Mg2+ binding site [chemical binding]; other site 693978000444 Switch I region; other site 693978000445 G2 box; other site 693978000446 Switch II region; other site 693978000447 G3 box; other site 693978000448 G4 box; other site 693978000449 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 693978000450 Domain of unknown function (DUF336); Region: DUF336; cl01249 693978000451 Domain of unknown function (DUF336); Region: DUF336; cl01249 693978000452 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 693978000453 active site 693978000454 homotetramer interface [polypeptide binding]; other site 693978000455 YceI-like domain; Region: YceI; cl01001 693978000456 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 693978000457 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 693978000458 active site 693978000459 catalytic residues [active] 693978000460 WbqC-like protein family; Region: WbqC; pfam08889 693978000461 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 693978000462 Catalytic site [active] 693978000463 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 693978000464 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 693978000465 dihydrodipicolinate reductase; Provisional; Region: PRK00048 693978000466 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 693978000467 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 693978000468 ParB-like partition proteins; Region: parB_part; TIGR00180 693978000469 ParB-like nuclease domain; Region: ParBc; cl02129 693978000470 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 693978000471 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 693978000472 P-loop; other site 693978000473 Magnesium ion binding site [ion binding]; other site 693978000474 ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation. ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the...; Region: ParA; cd02042 693978000475 Magnesium ion binding site [ion binding]; other site 693978000476 Gram-negative bacterial tonB protein; Region: TonB; cl10048 693978000477 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 693978000478 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 693978000479 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl01065 693978000480 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 693978000481 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 693978000482 Ftsk gamma domain; Region: Ftsk_gamma; cl09645 693978000483 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 693978000484 DNA polymerase III, delta subunit; Region: holA; TIGR01128 693978000485 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 693978000486 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 693978000487 Deoxyribonucleoside kinase (dNK) catalyzes the phosphorylation of deoxyribonucleosides to yield corresponding monophosphates (dNMPs). This family consists of various deoxynucleoside kinases including deoxyribo- cytidine (EC 2.7.1.74), guanosine (EC 2.7.1; Region: dNK; cd01673 693978000488 Substrate-binding site [chemical binding]; other site 693978000489 Substrate specificity [chemical binding]; other site 693978000490 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 693978000491 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 693978000492 NlpC/P60 family; Region: NLPC_P60; cl11438 693978000493 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 693978000494 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate (THDP) N-succinyltransferase (also called THP succinyltransferase): THDP N-succinyltransferase catalyzes the conversion of tetrahydrodipicolinate and succinyl-CoA to N-succinyltetrahydrodipicolinate and CoA; Region: LbH_THP_succinylT; cd03350 693978000495 trimer interface [polypeptide binding]; other site 693978000496 active site 693978000497 substrate binding site [chemical binding]; other site 693978000498 CoA binding site [chemical binding]; other site 693978000499 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 693978000500 Putative Catalytic site; other site 693978000501 DXD motif; other site 693978000502 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases and Helicobacter pylori peptidoglycan deacetylase (HpPgdA); Region: CE4_PuuE_HpPgdA_like_2; cd10941 693978000503 putative active site [active] 693978000504 putative catalytic site [active] 693978000505 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 693978000506 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 693978000507 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 693978000508 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 693978000509 ATP-grasp domain; Region: ATP-grasp_4; cl03087 693978000510 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 693978000511 GMP synthase; Reviewed; Region: guaA; PRK00074 693978000512 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 693978000513 AMP/PPi binding site [chemical binding]; other site 693978000514 candidate oxyanion hole; other site 693978000515 catalytic triad [active] 693978000516 potential glutamine specificity residues [chemical binding]; other site 693978000517 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 693978000518 ATP Binding subdomain [chemical binding]; other site 693978000519 Ligand Binding sites [chemical binding]; other site 693978000520 Dimerization subdomain; other site 693978000521 Mechanosensitive ion channel; Region: MS_channel; pfam00924 693978000522 Protein of unknown function (DUF1015); Region: DUF1015; cl01715 693978000523 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 693978000524 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 693978000525 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 693978000526 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 693978000527 catalytic residue [active] 693978000528 4Fe-4S binding domain; Region: Fer4; cl02805 693978000529 [FeFe] hydrogenase, group A; Region: FeFe_hydrog_A; TIGR02512 693978000530 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 693978000531 NAD(P) binding site [chemical binding]; other site 693978000532 catalytic residues [active] 693978000533 BAX inhibitor (BI)-1/YccA-like protein family; Region: BI-1-like; cl00473 693978000534 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 693978000535 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 693978000536 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 693978000537 Protein of unknown function (DUF493); Region: DUF493; cl01102 693978000538 Domain of unknown function (DUF4294); Region: DUF4294; pfam14127 693978000539 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 693978000540 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 693978000541 oligomer interface [polypeptide binding]; other site 693978000542 active site 693978000543 metal binding site [ion binding]; metal-binding site 693978000544 Protein of unknown function (Porph_ging); Region: Porph_ging; cl09903 693978000545 Isopentenyldiphosphate isomerase [Lipid metabolism]; Region: Idi; COG1443 693978000546 Isopentenyl diphosphate (IPP) isomerase, a member of the Nudix hydrolase superfamily, is a key enzyme in the isoprenoid biosynthetic pathway. Isoprenoids comprise a large family of natural products including sterols, carotenoids, dolichols and prenylated...; Region: IPP_Isomerase; cd02885 693978000547 active site 693978000548 metal binding site [ion binding]; metal-binding site 693978000549 nudix motif; other site 693978000550 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 693978000551 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 693978000552 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 693978000553 Sulfatase; Region: Sulfatase; cl10460 693978000554 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 693978000555 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 693978000556 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 693978000557 binding surface 693978000558 TPR motif; other site 693978000559 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 693978000560 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 693978000561 active site 693978000562 DNA binding site [nucleotide binding] 693978000563 Int/Topo IB signature motif; other site 693978000564 Fic family protein [Function unknown]; Region: COG3177 693978000565 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 693978000566 Fic/DOC family; Region: Fic; cl00960 693978000567 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 693978000568 DNA binding residues [nucleotide binding] 693978000569 AntA/AntB antirepressor; Region: AntA; cl01430 693978000570 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 693978000571 non-specific DNA binding site [nucleotide binding]; other site 693978000572 salt bridge; other site 693978000573 sequence-specific DNA binding site [nucleotide binding]; other site 693978000574 Protein of unknown function (DUF2693); Region: DUF2693; pfam10902 693978000575 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 693978000576 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 693978000577 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 693978000578 NlpE N-terminal domain; Region: NlpE; cl01138 693978000579 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 693978000580 active site 693978000581 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 693978000582 active site 693978000583 dimer interface [polypeptide binding]; other site 693978000584 Peptidase S8 family domain in Kp43 proteases; Region: Peptidases_S8_Kp43_protease; cd04842 693978000585 active site 693978000586 catalytic triad [active] 693978000587 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 693978000588 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 693978000589 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 693978000590 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 693978000591 active site 693978000592 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 693978000593 active site 693978000594 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 693978000595 PurM (Aminoimidazole Ribonucleotide [AIR] synthetase), one of eleven enzymes required for purine biosynthesis, catalyzes the conversion of formylglycinamide ribonucleotide (FGAM) and ATP to AIR, ADP, and Pi, the fifth step in de novo purine biosynthesis; Region: PurM; cd02196 693978000596 dimerization interface [polypeptide binding]; other site 693978000597 putative ATP binding site [chemical binding]; other site 693978000598 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 693978000599 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 693978000600 active site 693978000601 substrate binding site [chemical binding]; other site 693978000602 cosubstrate binding site; other site 693978000603 catalytic site [active] 693978000604 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 693978000605 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 693978000606 dimer interface [polypeptide binding]; other site 693978000607 anticodon binding site; other site 693978000608 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 693978000609 homodimer interface [polypeptide binding]; other site 693978000610 motif 1; other site 693978000611 active site 693978000612 motif 2; other site 693978000613 GAD domain; Region: GAD; pfam02938 693978000614 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 693978000615 motif 3; other site 693978000616 asparagine synthetase B; Provisional; Region: asnB; PRK09431 693978000617 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 693978000618 active site 693978000619 dimer interface [polypeptide binding]; other site 693978000620 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 693978000621 Ligand Binding Site [chemical binding]; other site 693978000622 Molecular Tunnel; other site 693978000623 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 693978000624 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 693978000625 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 693978000626 RNA binding surface [nucleotide binding]; other site 693978000627 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 693978000628 active site 693978000629 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 693978000630 ABC-type multidrug transport system, ATPase component. The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the...; Region: ABC_drug_resistance_like; cd03264 693978000631 Walker A/P-loop; other site 693978000632 ATP binding site [chemical binding]; other site 693978000633 Q-loop/lid; other site 693978000634 ABC transporter signature motif; other site 693978000635 Walker B; other site 693978000636 D-loop; other site 693978000637 H-loop/switch region; other site 693978000638 ABC-2 type transporter; Region: ABC2_membrane; cl11417 693978000639 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 693978000640 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 693978000641 Zn binding site [ion binding]; other site 693978000642 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; cl01481 693978000643 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 693978000644 Peptidase S8 family domain in Kp43 proteases; Region: Peptidases_S8_Kp43_protease; cd04842 693978000645 active site 693978000646 catalytic triad [active] 693978000647 recombination protein RecR; Reviewed; Region: recR; PRK00076 693978000648 RecR protein; Region: RecR; pfam02132 693978000649 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 693978000650 putative active site [active] 693978000651 putative metal-binding site [ion binding]; other site 693978000652 tetramer interface [polypeptide binding]; other site 693978000653 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 693978000654 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 693978000655 Probable Catalytic site; other site 693978000656 metal-binding site 693978000657 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 693978000658 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 693978000659 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 693978000660 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 693978000661 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 693978000662 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 693978000663 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 693978000664 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 693978000665 Family description; Region: UvrD_C_2; cl15862 693978000666 DNA polymerase I; Provisional; Region: PRK05755 693978000667 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 693978000668 active site 693978000669 metal binding site 1 [ion binding]; metal-binding site 693978000670 putative 5' ssDNA interaction site; other site 693978000671 metal binding site 3; metal-binding site 693978000672 metal binding site 2 [ion binding]; metal-binding site 693978000673 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 693978000674 putative DNA binding site [nucleotide binding]; other site 693978000675 putative metal binding site [ion binding]; other site 693978000676 DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases; Region: DNA_polA_I_Ecoli_like_exo; cd06139 693978000677 active site 693978000678 catalytic site [active] 693978000679 substrate binding site [chemical binding]; other site 693978000680 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 693978000681 active site 693978000682 DNA binding site [nucleotide binding] 693978000683 catalytic site [active] 693978000684 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 693978000685 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 693978000686 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 693978000687 GTPase Era; Reviewed; Region: era; PRK00089 693978000688 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 693978000689 G1 box; other site 693978000690 GTP/Mg2+ binding site [chemical binding]; other site 693978000691 Switch I region; other site 693978000692 G2 box; other site 693978000693 Switch II region; other site 693978000694 G3 box; other site 693978000695 G4 box; other site 693978000696 G5 box; other site 693978000697 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 693978000698 Ribosomal protein L19; Region: Ribosomal_L19; cl00406 693978000699 Formate--tetrahydrofolate ligase; Region: FTHFS; pfam01268 693978000700 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 693978000701 Potassium binding sites [ion binding]; other site 693978000702 Cesium cation binding sites [ion binding]; other site 693978000703 YhhN-like protein; Region: YhhN; cl01505 693978000704 PhoD-like phosphatase; Region: PhoD; pfam09423 693978000705 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 693978000706 active site 693978000707 metal binding site [ion binding]; metal-binding site 693978000708 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 693978000709 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 693978000710 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 693978000711 putative rRNA binding site [nucleotide binding]; other site 693978000712 phosphodiesterase; Provisional; Region: PRK12704 693978000713 CRISPR/Cas system-associated protein Cas3''; Region: Cas3''_I; cd09641 693978000714 Cell division protein ZapA; Region: ZapA; cl01146 693978000715 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 693978000716 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 693978000717 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 693978000718 anchoring element; other site 693978000719 dimer interface [polypeptide binding]; other site 693978000720 ATP binding site [chemical binding]; other site 693978000721 TOPRIM_TopoIIA_like: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to Saccharomyces cerevisiae Topoisomerase II. TopoIIA enzymes cut both strands...; Region: TOPRIM_TopoIIA_like; cd01030 693978000722 active site 693978000723 putative metal-binding site [ion binding]; other site 693978000724 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 693978000725 DNA topoisomerase IV subunit A; Provisional; Region: PRK12758 693978000726 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cl00148 693978000727 CAP-like domain; other site 693978000728 active site 693978000729 primary dimer interface [polypeptide binding]; other site 693978000730 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 693978000731 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 693978000732 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 693978000733 synthetase active site [active] 693978000734 NTP binding site [chemical binding]; other site 693978000735 metal binding site [ion binding]; metal-binding site 693978000736 TGS_RelA_SpoT: The RelA (SpoT) protein, also referred to as ppGpp hydrolase/synthetase, is a ribosome-associated protein that is activated during amino acid starvation and thought to mediate the stringent response. RelA contains a TGS domain, named after...; Region: TGS_RelA_SpoT; cd01668 693978000737 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 693978000738 Na+/H+ antiporter 1; Region: Na_H_antiport_1; cl01133 693978000739 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; cl08040 693978000740 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 693978000741 tryptophan synthase subunit alpha; Provisional; Region: trpA; PRK13111 693978000742 Ttryptophan synthase (TRPS) alpha subunit (TSA). TPRS is a bifunctional tetrameric enzyme (2 alpha and 2 beta subunits) that catalyzes the last two steps of L-tryptophan biosynthesis. Alpha and beta subunit catalyze two distinct reactions which are both...; Region: Tryptophan_synthase_alpha; cd04724 693978000743 substrate binding site [chemical binding]; other site 693978000744 active site 693978000745 catalytic residues [active] 693978000746 heterodimer interface [polypeptide binding]; other site 693978000747 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 693978000748 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 693978000749 pyridoxal 5'-phosphate binding site [chemical binding]; other site 693978000750 catalytic residue [active] 693978000751 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 693978000752 active site 693978000753 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 693978000754 active site 693978000755 ribulose/triose binding site [chemical binding]; other site 693978000756 phosphate binding site [ion binding]; other site 693978000757 substrate (anthranilate) binding pocket [chemical binding]; other site 693978000758 product (indole) binding pocket [chemical binding]; other site 693978000759 Methyladenine glycosylase; Region: Adenine_glyco; cl01059 693978000760 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 693978000761 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 693978000762 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 693978000763 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 693978000764 Glutamine amidotransferase class-I; Region: GATase; pfam00117 693978000765 glutamine binding [chemical binding]; other site 693978000766 catalytic triad [active] 693978000767 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 693978000768 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 693978000769 chorismate binding enzyme; Region: Chorismate_bind; cl10555 693978000770 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 693978000771 TGS _ThrRS_N: ThrRS (threonyl-tRNA Synthetase) is a class II tRNA synthetase that couples threonine to its cognate tRNA. In addition to its catalytic and anticodon-binding domains, ThrRS has an N-terminal TGS domain, named after the ThrRS, GTPase, and...; Region: TGS_ThrRS_N; cd01667 693978000772 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 693978000773 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 693978000774 active site 693978000775 dimer interface [polypeptide binding]; other site 693978000776 motif 1; other site 693978000777 motif 2; other site 693978000778 motif 3; other site 693978000779 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 693978000780 anticodon binding site; other site 693978000781 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 693978000782 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 693978000783 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 693978000784 Ribosomal protein L35; Region: Ribosomal_L35p; cl00392 693978000785 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 693978000786 23S rRNA binding site [nucleotide binding]; other site 693978000787 L21 binding site [polypeptide binding]; other site 693978000788 L13 binding site [polypeptide binding]; other site 693978000789 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 693978000790 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 693978000791 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 693978000792 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 693978000793 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 693978000794 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 693978000795 dimerization interface [polypeptide binding]; other site 693978000796 ATP binding site [chemical binding]; other site 693978000797 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 693978000798 dimerization interface [polypeptide binding]; other site 693978000799 ATP binding site [chemical binding]; other site 693978000800 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 693978000801 putative active site [active] 693978000802 catalytic triad [active] 693978000803 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 693978000804 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 693978000805 ATP binding site [chemical binding]; other site 693978000806 active site 693978000807 substrate binding site [chemical binding]; other site 693978000808 amidophosphoribosyltransferase; Region: purF; TIGR01134 693978000809 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 693978000810 active site 693978000811 tetramer interface [polypeptide binding]; other site 693978000812 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 693978000813 active site 693978000814 Cupin domain; Region: Cupin_2; cl09118 693978000815 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 693978000816 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 693978000817 Intradiol dioxygenase supgroup. Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. They break the catechol C1-C2 bond and utilize Fe3+, as opposed to the...; Region: intradiol_dioxygenase_like; cd03457 693978000818 putative active site [active] 693978000819 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 693978000820 LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop; Region: LysRS_N; cd04322 693978000821 dimer interface [polypeptide binding]; other site 693978000822 putative anticodon binding site; other site 693978000823 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 693978000824 motif 1; other site 693978000825 active site 693978000826 motif 2; other site 693978000827 motif 3; other site 693978000828 Cytochrome c peroxidase [Inorganic ion transport and metabolism]; Region: MauG; COG1858 693978000829 Adenylosuccinate synthetase (AdSS) catalyzes the first step in the de novo biosynthesis of AMP. IMP and L-aspartate are conjugated in a two-step reaction accompanied by the hydrolysis of GTP to GDP in the presence of Mg2+. In the first step, the...; Region: AdSS; cd03108 693978000830 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 693978000831 GDP-binding site [chemical binding]; other site 693978000832 ACT binding site; other site 693978000833 IMP binding site; other site 693978000834 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 693978000835 catalytic residues [active] 693978000836 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 693978000837 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 693978000838 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 693978000839 G1 box; other site 693978000840 putative GEF interaction site [polypeptide binding]; other site 693978000841 GTP/Mg2+ binding site [chemical binding]; other site 693978000842 Switch I region; other site 693978000843 G2 box; other site 693978000844 G3 box; other site 693978000845 Switch II region; other site 693978000846 G4 box; other site 693978000847 G5 box; other site 693978000848 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 693978000849 BipA_TypA_C: a C-terminal portion of BipA or TypA having homology to the C terminal domains of the elongation factors EF-G and EF-2. A member of the ribosome binding GTPase superfamily, BipA is widely distributed in bacteria and plants. BipA is a highly...; Region: BipA_TypA_C; cd03710 693978000850 Protein of unknown function (DUF465); Region: DUF465; cl01070 693978000851 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 693978000852 Uridine monophosphate kinase (UMPK, EC 2.7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway; Region: UMPK; cd02023 693978000853 ATP-binding site [chemical binding]; other site 693978000854 Sugar specificity; other site 693978000855 Pyrimidine base specificity; other site 693978000856 Septum formation initiator; Region: DivIC; cl11433 693978000857 GTPase RsgA; Reviewed; Region: PRK00098 693978000858 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 693978000859 RNA binding site [nucleotide binding]; other site 693978000860 homodimer interface [polypeptide binding]; other site 693978000861 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 693978000862 GTPase/Zn-binding domain interface [polypeptide binding]; other site 693978000863 GTP/Mg2+ binding site [chemical binding]; other site 693978000864 G4 box; other site 693978000865 G5 box; other site 693978000866 G1 box; other site 693978000867 Switch I region; other site 693978000868 G2 box; other site 693978000869 G3 box; other site 693978000870 Switch II region; other site 693978000871 Uncharacterized protein family (UPF0075); Region: UPF0075; cl04217 693978000872 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 693978000873 substrate binding site [chemical binding]; other site 693978000874 dimer interface [polypeptide binding]; other site 693978000875 catalytic triad [active] 693978000876 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 693978000877 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 693978000878 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 693978000879 dimerization interface [polypeptide binding]; other site 693978000880 putative DNA binding site [nucleotide binding]; other site 693978000881 putative Zn2+ binding site [ion binding]; other site 693978000882 Membrane transport protein; Region: Mem_trans; cl09117 693978000883 signal recognition particle protein; Provisional; Region: PRK10867 693978000884 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 693978000885 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 693978000886 P loop; other site 693978000887 GTP binding site [chemical binding]; other site 693978000888 Signal peptide binding domain; Region: SRP_SPB; pfam02978 693978000889 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 693978000890 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 693978000891 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 693978000892 S-adenosylmethionine binding site [chemical binding]; other site 693978000893 Protein of unknown function (DUF328); Region: DUF328; cl01143 693978000894 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 693978000895 Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates...; Region: IMPCH; cd01421 693978000896 purine monophosphate binding site [chemical binding]; other site 693978000897 dimer interface [polypeptide binding]; other site 693978000898 putative catalytic residues [active] 693978000899 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 693978000900 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 693978000901 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 693978000902 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 693978000903 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 693978000904 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 693978000905 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 693978000906 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 693978000907 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_4; cd03407 693978000908 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 693978000909 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 693978000910 RNA binding site [nucleotide binding]; other site 693978000911 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 693978000912 RNA binding site [nucleotide binding]; other site 693978000913 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of...; Region: S1_RPS1_repeat_ec3; cd05688 693978000914 RNA binding site [nucleotide binding]; other site 693978000915 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 693978000916 RNA binding site [nucleotide binding]; other site 693978000917 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 693978000918 RNA binding site [nucleotide binding]; other site 693978000919 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 693978000920 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 693978000921 active site 693978000922 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 693978000923 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 693978000924 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 693978000925 Cytochrome c; Region: Cytochrom_C; cl11414 693978000926 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 693978000927 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 693978000928 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 693978000929 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 693978000930 Predicted permeases [General function prediction only]; Region: COG0730; cl00498 693978000931 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 693978000932 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 693978000933 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 693978000934 substrate binding site [chemical binding]; other site 693978000935 oxyanion hole (OAH) forming residues; other site 693978000936 trimer interface [polypeptide binding]; other site 693978000937 UbiA prenyltransferase family; Region: UbiA; cl00337 693978000938 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 693978000939 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 693978000940 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 693978000941 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 693978000942 dipeptidyl carboxypeptidase II; Provisional; Region: PRK10280 693978000943 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 693978000944 active site 693978000945 Zn binding site [ion binding]; other site 693978000946 Barstar is an intracellular inhibitor of barnase, an extracellular ribonuclease of Bacillus amyloliquefaciens. Barstar binds tightly to the barnase active site and sterically blocks it thus inhibiting its potentially lethal RNase activity inside the cell; Region: Barstar; cd05142 693978000947 RNAase interaction site [polypeptide binding]; other site 693978000948 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 693978000949 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 693978000950 active site 693978000951 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 693978000952 THUMP domain; Region: THUMP; cl12076 693978000953 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; cl16911 693978000954 acetyl-CoA synthetase; Provisional; Region: PRK00174 693978000955 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 693978000956 AMP-binding enzyme; Region: AMP-binding; cl15778 693978000957 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 693978000958 helicase 45; Provisional; Region: PTZ00424 693978000959 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 693978000960 ATP binding site [chemical binding]; other site 693978000961 Mg++ binding site [ion binding]; other site 693978000962 motif III; other site 693978000963 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 693978000964 nucleotide binding region [chemical binding]; other site 693978000965 ATP-binding site [chemical binding]; other site 693978000966 DbpA RNA binding domain; Region: DbpA; pfam03880 693978000967 YtxH-like protein; Region: YtxH; cl02079 693978000968 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 693978000969 TPR motif; other site 693978000970 binding surface 693978000971 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 693978000972 DNA gyrase subunit A; Validated; Region: PRK05560 693978000973 DNA Topoisomerase, subtype IIA; domain A'; bacterial DNA topoisomerase IV (C subunit, ParC), bacterial DNA gyrases (A subunit, GyrA),mammalian DNA toposiomerases II. DNA topoisomerases are essential enzymes that regulate the conformational changes in DNA...; Region: TOP4c; cd00187 693978000974 CAP-like domain; other site 693978000975 active site 693978000976 primary dimer interface [polypeptide binding]; other site 693978000977 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 693978000978 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 693978000979 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 693978000980 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 693978000981 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 693978000982 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 693978000983 Domain of unknown function (DUF4286); Region: DUF4286; pfam14114 693978000984 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 693978000985 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 693978000986 ATP binding site [chemical binding]; other site 693978000987 Mg2+ binding site [ion binding]; other site 693978000988 G-X-G motif; other site 693978000989 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 693978000990 anchoring element; other site 693978000991 dimer interface [polypeptide binding]; other site 693978000992 ATP binding site [chemical binding]; other site 693978000993 TOPRIM_TopoIIA_GyrB: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in proteins of the type IIA family of DNA topoisomerases similar to the Escherichia coli GyrB subunit. TopoIIA enzymes cut both strands of the...; Region: TOPRIM_TopoIIA_GyrB; cd03366 693978000994 active site 693978000995 putative metal-binding site [ion binding]; other site 693978000996 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 693978000997 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 693978000998 dimer interface [polypeptide binding]; other site 693978000999 ssDNA binding site [nucleotide binding]; other site 693978001000 tetramer (dimer of dimers) interface [polypeptide binding]; other site 693978001001 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 693978001002 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 693978001003 active site 693978001004 DNA binding site [nucleotide binding] 693978001005 Int/Topo IB signature motif; other site 693978001006 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 693978001007 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 693978001008 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 693978001009 active site 693978001010 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 693978001011 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 693978001012 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl14656 693978001013 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 693978001014 hypothetical protein; Provisional; Region: PRK06753 693978001015 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 693978001016 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; cl16911 693978001017 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_2; cd06239 693978001018 putative active site [active] 693978001019 Zn binding site [ion binding]; other site 693978001020 Integral membrane protein TerC family; Region: TerC; cl10468 693978001021 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 693978001022 non-specific DNA binding site [nucleotide binding]; other site 693978001023 salt bridge; other site 693978001024 sequence-specific DNA binding site [nucleotide binding]; other site 693978001025 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 693978001026 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 693978001027 catalytic residues [active] 693978001028 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Deinococcus radiodurans DR2231 protein and its bacterial homologs; Region: NTP-PPase_DR2231_like; cd11530 693978001029 metal binding site [ion binding]; metal-binding site 693978001030 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 693978001031 active site 693978001032 catalytic motif [active] 693978001033 Zn binding site [ion binding]; other site 693978001034 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 693978001035 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 693978001036 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 693978001037 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 693978001038 Predicted acetyltransferase [General function prediction only]; Region: COG3153 693978001039 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 693978001040 Coenzyme A binding pocket [chemical binding]; other site 693978001041 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 693978001042 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 693978001043 DNA binding residues [nucleotide binding] 693978001044 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 693978001045 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 693978001046 Probable Catalytic site; other site 693978001047 metal-binding site 693978001048 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 693978001049 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 693978001050 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 693978001051 putative acyl-acceptor binding pocket; other site 693978001052 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 693978001053 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 693978001054 ArsC family; Region: ArsC; pfam03960 693978001055 catalytic residues [active] 693978001056 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 693978001057 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 693978001058 dimer interface [polypeptide binding]; other site 693978001059 motif 1; other site 693978001060 active site 693978001061 motif 2; other site 693978001062 motif 3; other site 693978001063 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 693978001064 anticodon binding site; other site 693978001065 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 693978001066 Isochorismatase family; Region: Isochorismatase; pfam00857 693978001067 catalytic triad [active] 693978001068 metal binding site [ion binding]; metal-binding site 693978001069 conserved cis-peptide bond; other site 693978001070 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 693978001071 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 693978001072 active site 693978001073 motif I; other site 693978001074 motif II; other site 693978001075 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 693978001076 active site 693978001077 prephenate dehydratase; Provisional; Region: PRK11898 693978001078 Prephenate dehydratase; Region: PDT; pfam00800 693978001079 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 693978001080 putative L-Phe binding site [chemical binding]; other site 693978001081 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 693978001082 Ligand Binding Site [chemical binding]; other site 693978001083 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 693978001084 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 693978001085 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl15357 693978001086 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 693978001087 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 693978001088 Protein export membrane protein; Region: SecD_SecF; cl14618 693978001089 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 693978001090 Protein export membrane protein; Region: SecD_SecF; cl14618 693978001091 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 693978001092 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 693978001093 FeS/SAM binding site; other site 693978001094 HemN C-terminal domain; Region: HemN_C; pfam06969 693978001095 Na(+)/iodide (NIS) and Na(+)/multivitamin (SMVT) cotransporters, and related proteins; solute binding domain; Region: SLC5sbd_NIS-like; cd10326 693978001096 Na binding site [ion binding]; other site 693978001097 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 693978001098 TPP-binding site [chemical binding]; other site 693978001099 dimer interface [polypeptide binding]; other site 693978001100 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 693978001101 Domain of unknown function (DUF336); Region: DUF336; cl01249 693978001102 Protein of unknown function, DUF417; Region: DUF417; cl01162 693978001103 Domain of unknown function (DUF336); Region: DUF336; cl01249 693978001104 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 693978001105 active site 693978001106 homotetramer interface [polypeptide binding]; other site 693978001107 Domain of unknown function (DUF336); Region: DUF336; cl01249 693978001108 Domain of unknown function (DUF336); Region: DUF336; cl01249 693978001109 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 693978001110 active site 693978001111 homotetramer interface [polypeptide binding]; other site 693978001112 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 693978001113 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 693978001114 PYR/PP interface [polypeptide binding]; other site 693978001115 dimer interface [polypeptide binding]; other site 693978001116 TPP binding site [chemical binding]; other site 693978001117 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 693978001118 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 693978001119 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 693978001120 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 693978001121 NAD(P) binding site [chemical binding]; other site 693978001122 active site 693978001123 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 693978001124 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 693978001125 ring oligomerisation interface [polypeptide binding]; other site 693978001126 ATP/Mg binding site [chemical binding]; other site 693978001127 stacking interactions; other site 693978001128 hinge regions; other site 693978001129 Chaperonin 10 Kd subunit (cpn10 or GroES); Cpn10 cooperates with chaperonin 60 (cpn60 or GroEL), an ATPase, to assist the folding and assembly of proteins and is found in eubacterial cytosol, as well as in the matrix of mitochondria and chloroplasts. It...; Region: cpn10; cd00320 693978001130 oligomerisation interface [polypeptide binding]; other site 693978001131 mobile loop; other site 693978001132 roof hairpin; other site 693978001133 META domain; Region: META; cl01245 693978001134 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 693978001135 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 693978001136 putative tRNA-binding site [nucleotide binding]; other site 693978001137 B3/4 domain; Region: B3_4; cl11458 693978001138 tRNA synthetase B5 domain; Region: B5; cl08394 693978001139 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 693978001140 dimer interface [polypeptide binding]; other site 693978001141 motif 1; other site 693978001142 motif 3; other site 693978001143 motif 2; other site 693978001144 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; cl08386 693978001145 DNA polymerase III subunit beta; Validated; Region: PRK05643 693978001146 Beta clamp domain. The beta subunit (processivity factor) of DNA polymerase III holoenzyme, refered to as the beta clamp, forms a ring shaped dimer that encircles dsDNA (sliding clamp) in bacteria. The beta-clamp is structurally similar to the trimeric...; Region: beta_clamp; cd00140 693978001147 putative DNA binding surface [nucleotide binding]; other site 693978001148 dimer interface [polypeptide binding]; other site 693978001149 beta-clamp/clamp loader binding surface; other site 693978001150 beta-clamp/translesion DNA polymerase binding surface; other site 693978001151 Inactivated superfamily I helicase [DNA replication, recombination, and repair]; Region: COG3893 693978001152 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 693978001153 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; cl16911 693978001154 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 693978001155 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 693978001156 active site 693978001157 metal binding site [ion binding]; metal-binding site 693978001158 UDP-glucose 4-epimerase; Region: PLN02240 693978001159 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 693978001160 NAD binding site [chemical binding]; other site 693978001161 homodimer interface [polypeptide binding]; other site 693978001162 active site 693978001163 substrate binding site [chemical binding]; other site 693978001164 DegT/DnrJ/EryC1/StrS aminotransferase family; Region: DegT_DnrJ_EryC1; pfam01041 693978001165 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 693978001166 inhibitor-cofactor binding pocket; inhibition site 693978001167 pyridoxal 5'-phosphate binding site [chemical binding]; other site 693978001168 catalytic residue [active] 693978001169 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 693978001170 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 693978001171 tetramer interface [polypeptide binding]; other site 693978001172 TPP-binding site [chemical binding]; other site 693978001173 heterodimer interface [polypeptide binding]; other site 693978001174 phosphorylation loop region [posttranslational modification] 693978001175 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 693978001176 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 693978001177 PYR/PP interface [polypeptide binding]; other site 693978001178 dimer interface [polypeptide binding]; other site 693978001179 TPP binding site [chemical binding]; other site 693978001180 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 693978001181 Peptidase S46; Region: Peptidase_S46; pfam10459 693978001182 Domain of unknown function (DUF4268); Region: DUF4268; pfam14088 693978001183 Helical backbone metal receptor (TroA-like domain). These proteins have been shown to function in the ABC transport of ferric siderophores and metal ions such as Mn2+, Fe3+, Cu2+ and/or Zn2+. Their ligand binding site is formed in the interface between...; Region: TroA-like; cl00262 693978001184 intersubunit interface [polypeptide binding]; other site 693978001185 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 693978001186 Adenylsuccinate lyase (ASL)_subgroup 2; Region: Adenylsuccinate_lyase_2; cd03302 693978001187 tetramer interface [polypeptide binding]; other site 693978001188 active site 693978001189 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 693978001190 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 693978001191 active site 693978001192 HIGH motif; other site 693978001193 KMSKS motif; other site 693978001194 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 693978001195 tRNA binding surface [nucleotide binding]; other site 693978001196 anticodon binding site; other site 693978001197 tRNA-binding-domain-containing Escherichia coli methionyl-tRNA synthetase (EcMetRS)-like proteins. This family includes EcMetRS and Aquifex aeolicus Trbp111 (AaTrbp111). This domain has general tRNA binding properties. MetRS aminoacylates methionine...; Region: tRNA_bind_EcMetRS_like; cd02800 693978001198 dimer interface [polypeptide binding]; other site 693978001199 putative tRNA-binding site [nucleotide binding]; other site 693978001200 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 693978001201 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 693978001202 active site 693978001203 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 693978001204 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 693978001205 ATP binding site [chemical binding]; other site 693978001206 Mg++ binding site [ion binding]; other site 693978001207 motif III; other site 693978001208 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 693978001209 nucleotide binding region [chemical binding]; other site 693978001210 ATP-binding site [chemical binding]; other site 693978001211 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 693978001212 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 693978001213 dimer interface [polypeptide binding]; other site 693978001214 active site 693978001215 metal binding site [ion binding]; metal-binding site 693978001216 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 693978001217 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 693978001218 FAD binding site [chemical binding]; other site 693978001219 homotetramer interface [polypeptide binding]; other site 693978001220 substrate binding pocket [chemical binding]; other site 693978001221 catalytic base [active] 693978001222 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 693978001223 AMP-binding enzyme; Region: AMP-binding; cl15778 693978001224 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 693978001225 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 693978001226 G1 box; other site 693978001227 putative GEF interaction site [polypeptide binding]; other site 693978001228 GTP/Mg2+ binding site [chemical binding]; other site 693978001229 Switch I region; other site 693978001230 G2 box; other site 693978001231 G3 box; other site 693978001232 Switch II region; other site 693978001233 G4 box; other site 693978001234 G5 box; other site 693978001235 RF3_II: this subfamily represents the domain II of bacterial Release Factor 3 (RF3). Termination of protein synthesis by the ribosome requires two release factor (RF) classes. The class II RF3 is a GTPase that removes class I RFs (RF1 or RF2) from the...; Region: RF3_II; cd03689 693978001236 Ion transport protein; Region: Ion_trans; pfam00520 693978001237 Ion channel; Region: Ion_trans_2; cl11596 693978001238 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 693978001239 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 693978001240 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 693978001241 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 693978001242 Putative zinc ribbon domain; Region: DUF164; pfam02591 693978001243 potential frameshift: common BLAST hit: gi|313205901|ref|YP_004045078.1| prolyl oligopeptidase family protein 693978001244 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 693978001245 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 693978001246 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 693978001247 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 693978001248 recombination protein F; Reviewed; Region: recF; PRK00064 693978001249 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 693978001250 Walker A/P-loop; other site 693978001251 ATP binding site [chemical binding]; other site 693978001252 Q-loop/lid; other site 693978001253 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 693978001254 ABC transporter signature motif; other site 693978001255 Walker B; other site 693978001256 D-loop; other site 693978001257 H-loop/switch region; other site 693978001258 UbiA prenyltransferase family; Region: UbiA; cl00337 693978001259 ResB-like family; Region: ResB; pfam05140 693978001260 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 693978001261 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 693978001262 tRNA (Guanine-1)-methyltransferase; Region: tRNA_m1G_MT; cl00407 693978001263 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 693978001264 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 693978001265 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 693978001266 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 693978001267 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 693978001268 E3 interaction surface; other site 693978001269 lipoyl attachment site [posttranslational modification]; other site 693978001270 e3 binding domain; Region: E3_binding; pfam02817 693978001271 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 693978001272 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 693978001273 Thiamine pyrophosphate (TPP) family, E1 of OGDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the 2-oxoglutarate dehydrogenase multienzyme complex (OGDC). OGDC catalyzes the oxidative decarboxylation of...; Region: TPP_E1_OGDC_like; cd02016 693978001274 TPP-binding site [chemical binding]; other site 693978001275 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 693978001276 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 693978001277 hydrophobic ligand binding site; other site 693978001278 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; cl00933 693978001279 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 693978001280 Domain of unknown function DUF21; Region: DUF21; pfam01595 693978001281 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 693978001282 Transporter associated domain; Region: CorC_HlyC; cl08393 693978001283 F0F1 ATP synthase subunit gamma; Provisional; Region: PRK13422 693978001284 ATP synthase; Region: ATP-synt; cl00365 693978001285 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 693978001286 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 693978001287 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 693978001288 beta subunit interaction interface [polypeptide binding]; other site 693978001289 Walker A motif; other site 693978001290 ATP binding site [chemical binding]; other site 693978001291 Walker B motif; other site 693978001292 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 693978001293 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 693978001294 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 693978001295 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl07975 693978001296 ATP synthase A chain; Region: ATP-synt_A; cl00413 693978001297 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 693978001298 Major Facilitator Superfamily; Region: MFS_1; pfam07690 693978001299 putative substrate translocation pore; other site 693978001300 PAP2_like_4 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_4; cd03395 693978001301 active site 693978001302 Predicted periplasmic ligand-binding sensor domain [Signal transduction mechanisms]; Region: COG3292 693978001303 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 693978001304 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 693978001305 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 693978001306 active site 693978001307 metal binding site [ion binding]; metal-binding site 693978001308 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 693978001309 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 693978001310 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 693978001311 DNA binding site [nucleotide binding] 693978001312 active site 693978001313 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 693978001314 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 693978001315 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 693978001316 YceG-like family; Region: YceG; pfam02618 693978001317 proteins similar to Escherichia coli yceG; Region: yceG_like; cl00675 693978001318 dimerization interface [polypeptide binding]; other site 693978001319 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 693978001320 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 693978001321 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 693978001322 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 693978001323 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 693978001324 active site 693978001325 HIGH motif; other site 693978001326 nucleotide binding site [chemical binding]; other site 693978001327 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 693978001328 active site 693978001329 KMSKS motif; other site 693978001330 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 693978001331 UbiA prenyltransferase family; Region: UbiA; cl00337 693978001332 mevalonate kinase; Region: mevalon_kin; TIGR00549 693978001333 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 693978001334 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 693978001335 NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like...; Region: PA_degradation_oxidoreductase_like; cd06214 693978001336 FAD binding pocket [chemical binding]; other site 693978001337 FAD binding motif [chemical binding]; other site 693978001338 phosphate binding motif [ion binding]; other site 693978001339 beta-alpha-beta structure motif; other site 693978001340 NAD(p) ribose binding residues [chemical binding]; other site 693978001341 NAD binding pocket [chemical binding]; other site 693978001342 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 693978001343 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 693978001344 catalytic loop [active] 693978001345 iron binding site [ion binding]; other site 693978001346 periplasmic protein thiol:disulfide oxidoreductases, DsbE subfamily; Region: dsbE; TIGR00385 693978001347 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 693978001348 catalytic residues [active] 693978001349 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 693978001350 ABC-ATPase subunit interface; other site 693978001351 dimer interface [polypeptide binding]; other site 693978001352 putative PBP binding regions; other site 693978001353 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 693978001354 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; cl03056 693978001355 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 693978001356 catalytic site [active] 693978001357 subunit interface [polypeptide binding]; other site 693978001358 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 693978001359 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 693978001360 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 693978001361 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 693978001362 active site 693978001363 homodimer interface [polypeptide binding]; other site 693978001364 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 693978001365 DNA-binding site [nucleotide binding]; DNA binding site 693978001366 RNA-binding motif; other site 693978001367 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 693978001368 DNA-binding site [nucleotide binding]; DNA binding site 693978001369 RNA-binding motif; other site 693978001370 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 693978001371 DEAD-like helicases superfamily; Region: DEXDc; smart00487 693978001372 ATP binding site [chemical binding]; other site 693978001373 Mg++ binding site [ion binding]; other site 693978001374 motif III; other site 693978001375 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 693978001376 nucleotide binding region [chemical binding]; other site 693978001377 ATP-binding site [chemical binding]; other site 693978001378 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 693978001379 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 693978001380 FeS/SAM binding site; other site 693978001381 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 693978001382 Queuosine biosynthesis protein; Region: Queuosine_synth; cl00523 693978001383 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 693978001384 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 693978001385 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 693978001386 WYL domain; Region: WYL; cl14852 693978001387 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 693978001388 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 693978001389 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 693978001390 Ribosomal protein S18; Region: Ribosomal_S18; cl00373 693978001391 Ribosomal protein S6; Region: Ribosomal_S6; cl00414 693978001392 ClC chloride channel family. These protein sequences, closely related to the ClC Eric family, are putative halogen ion (Cl-, Br- and I-) transport proteins found in eubacteria. They belong to the ClC superfamily of chloride ion channels, which share a...; Region: EriC_like; cd01034 693978001393 Voltage gated chloride channel; Region: Voltage_CLC; pfam00654 693978001394 putative ion selectivity filter; other site 693978001395 putative pore gating glutamate residue; other site 693978001396 putative H+/Cl- coupling transport residue; other site 693978001397 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 693978001398 Actin; An ubiquitous protein involved in the formation of filaments that are a major component of the cytoskeleton. Interaction with myosin provides the basis of muscular contraction and many aspects of cell motility. Each actin protomer binds one...; Region: ACTIN; cl11528 693978001399 ATP binding site [chemical binding]; other site 693978001400 profilin binding site; other site 693978001401 Domain of unknown function (DUF955); Region: DUF955; cl01076 693978001402 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 693978001403 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 693978001404 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 693978001405 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 693978001406 substrate-cofactor binding pocket; other site 693978001407 pyridoxal 5'-phosphate binding site [chemical binding]; other site 693978001408 catalytic residue [active] 693978001409 Restriction endonuclease [Defense mechanisms]; Region: Mrr; COG1715 693978001410 Mrr N-terminal domain; Region: Mrr_N; pfam14338 693978001411 Restriction endonuclease; Region: Mrr_cat; cl00516 693978001412 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 693978001413 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 693978001414 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 693978001415 dimer interface [polypeptide binding]; other site 693978001416 pyridoxal 5'-phosphate binding site [chemical binding]; other site 693978001417 catalytic residue [active] 693978001418 Small Multidrug Resistance protein; Region: Multi_Drug_Res; cl00910 693978001419 BlaR1 peptidase M56; Region: Peptidase_M56; cl15829 693978001420 Helix-turn-helix domains; Region: HTH; cl00088 693978001421 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 693978001422 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 693978001423 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 693978001424 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 693978001425 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 693978001426 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 693978001427 active site 693978001428 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 693978001429 catalytic residues [active] 693978001430 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 693978001431 cysteine desulfurase DndA; Region: DNA_S_dndA; TIGR03235 693978001432 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 693978001433 catalytic residue [active] 693978001434 PrcB C-terminal; Region: PrcB_C; pfam14343 693978001435 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 693978001436 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 693978001437 NAD(P) binding site [chemical binding]; other site 693978001438 active site 693978001439 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 693978001440 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 693978001441 substrate binding pocket [chemical binding]; other site 693978001442 chain length determination region; other site 693978001443 substrate-Mg2+ binding site; other site 693978001444 catalytic residues [active] 693978001445 aspartate-rich region 1; other site 693978001446 active site lid residues [active] 693978001447 aspartate-rich region 2; other site 693978001448 Trm112p-like protein; Region: Trm112p; cl01066 693978001449 Thiamine monophosphate synthase (TMP synthase)/TenI. TMP synthase catalyzes an important step in the thiamine biosynthesis pathway, the substitution of the pyrophosphate of 2-methyl-4-amino-5- hydroxymethylpyrimidine pyrophosphate by 4-methyl-5-; Region: TMP_TenI; cd00564 693978001450 thiamine phosphate binding site [chemical binding]; other site 693978001451 active site 693978001452 pyrophosphate binding site [ion binding]; other site 693978001453 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypE; COG0309 693978001454 AIR synthase (PurM) related protein, subgroup 1 of unknown function. The family of PurM related proteins includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM synthase and Selenophosphate synthetase (SelD). They all contain two...; Region: PurM-like1; cd06061 693978001455 dimerization interface [polypeptide binding]; other site 693978001456 putative ATP binding site [chemical binding]; other site 693978001457 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 693978001458 S-adenosylmethionine binding site [chemical binding]; other site 693978001459 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 693978001460 hypothetical protein; Provisional; Region: PRK08201 693978001461 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 693978001462 metal binding site [ion binding]; metal-binding site 693978001463 putative dimer interface [polypeptide binding]; other site 693978001464 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 693978001465 ligand binding site [chemical binding]; other site 693978001466 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; cl16911 693978001467 shikimate kinase; Reviewed; Region: aroK; PRK00131 693978001468 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 693978001469 ADP binding site [chemical binding]; other site 693978001470 magnesium binding site [ion binding]; other site 693978001471 putative shikimate binding site; other site 693978001472 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 693978001473 RNA binding surface [nucleotide binding]; other site 693978001474 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 693978001475 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 693978001476 Walker A/P-loop; other site 693978001477 ATP binding site [chemical binding]; other site 693978001478 Q-loop/lid; other site 693978001479 ABC transporter signature motif; other site 693978001480 Walker B; other site 693978001481 D-loop; other site 693978001482 H-loop/switch region; other site 693978001483 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 693978001484 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 693978001485 PhnA protein; Region: PhnA; pfam03831 693978001486 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 693978001487 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 693978001488 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 693978001489 catalytic residue [active] 693978001490 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 693978001491 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 693978001492 Zn binding site [ion binding]; other site 693978001493 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cd02883 693978001494 nudix motif; other site 693978001495 Helix-turn-helix domains; Region: HTH; cl00088 693978001496 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 693978001497 integral membrane protein, YccS/YhfK family; Region: YCCS_YHJK; TIGR01667 693978001498 Fusaric acid resistance protein-like; Region: FUSC_2; cl15844 693978001499 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 693978001500 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; cl00500 693978001501 Phosphate transporter family; Region: PHO4; cl00396 693978001502 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 693978001503 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 693978001504 CIMS - Cobalamine-independent methonine synthase, or MetE, N-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_N_terminal_like; cd03312 693978001505 THF binding site; other site 693978001506 CIMS - Cobalamine-independent methonine synthase, or MetE, C-terminal domain_like. Many members have been characterized as 5-methyltetrahydropteroyltriglutamate-homocysteine methyltransferases, EC:2.1.1.14, mostly from bacteria and plants. This enzyme...; Region: CIMS_C_terminal_like; cd03311 693978001507 substrate binding site [chemical binding]; other site 693978001508 THF binding site; other site 693978001509 zinc-binding site [ion binding]; other site 693978001510 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 693978001511 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 693978001512 Surface antigen; Region: Bac_surface_Ag; cl03097 693978001513 NeuB family; Region: NeuB; cl00496 693978001514 Chorismate mutase type II; Region: CM_2; cl00693 693978001515 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14970 693978001516 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 693978001517 Walker A motif; other site 693978001518 ATP binding site [chemical binding]; other site 693978001519 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 693978001520 Walker B motif; other site 693978001521 arginine finger; other site 693978001522 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 693978001523 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 693978001524 dimer interface [polypeptide binding]; other site 693978001525 substrate binding site [chemical binding]; other site 693978001526 metal binding sites [ion binding]; metal-binding site 693978001527 hypothetical protein; Reviewed; Region: PRK00024 693978001528 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 693978001529 MPN+ (JAMM) motif; other site 693978001530 Zinc-binding site [ion binding]; other site 693978001531 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 693978001532 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 693978001533 Walker A/P-loop; other site 693978001534 ATP binding site [chemical binding]; other site 693978001535 Q-loop/lid; other site 693978001536 ABC transporter signature motif; other site 693978001537 Walker B; other site 693978001538 D-loop; other site 693978001539 H-loop/switch region; other site 693978001540 LrgA family; Region: LrgA; cl00608 693978001541 LrgB-like family; Region: LrgB; cl00596 693978001542 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 693978001543 dihydropteroate synthase; Region: DHPS; TIGR01496 693978001544 substrate binding pocket [chemical binding]; other site 693978001545 dimer interface [polypeptide binding]; other site 693978001546 inhibitor binding site; inhibition site 693978001547 cytidylate kinase; Provisional; Region: cmk; PRK00023 693978001548 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 693978001549 CMP-binding site; other site 693978001550 The sites determining sugar specificity; other site 693978001551 Predicted integral membrane protein [Function unknown]; Region: COG0392 693978001552 Uncharacterized protein family (UPF0104); Region: UPF0104; cl04219 693978001553 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 693978001554 tetramerization interface [polypeptide binding]; other site 693978001555 active site 693978001556 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cl00257 693978001557 IHF dimer interface [polypeptide binding]; other site 693978001558 IHF - DNA interface [nucleotide binding]; other site 693978001559 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 693978001560 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 693978001561 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 693978001562 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 693978001563 Uncharacterized ACR, COG1678; Region: DUF179; cl00731 693978001564 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 693978001565 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 693978001566 metal binding site [ion binding]; metal-binding site 693978001567 dimer interface [polypeptide binding]; other site 693978001568 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 693978001569 putative catalytic site [active] 693978001570 putative metal binding site [ion binding]; other site 693978001571 putative phosphate binding site [ion binding]; other site 693978001572 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 693978001573 Tetramer interface [polypeptide binding]; other site 693978001574 active site 693978001575 FMN-binding site [chemical binding]; other site 693978001576 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 693978001577 catalytic residues [active] 693978001578 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 693978001579 lipoyl synthase; Provisional; Region: PRK05481 693978001580 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 693978001581 FeS/SAM binding site; other site 693978001582 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 693978001583 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 693978001584 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 693978001585 DNA binding residues [nucleotide binding] 693978001586 Ribosome-binding factor A; Region: RBFA; cl00542 693978001587 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 693978001588 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 693978001589 FtsX-like permease family; Region: FtsX; cl15850 693978001590 Endonuclease I; Region: Endonuclease_1; cl01003 693978001591 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 693978001592 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cd00016 693978001593 Alkaline phosphatase homologues; Region: alkPPc; smart00098 693978001594 active site 693978001595 dimer interface [polypeptide binding]; other site 693978001596 competence damage-inducible protein A; Provisional; Region: PRK00549 693978001597 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 693978001598 putative MPT binding site; other site 693978001599 Competence-damaged protein; Region: CinA; cl00666 693978001600 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 693978001601 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 693978001602 active site 693978001603 Zn binding site [ion binding]; other site 693978001604 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 693978001605 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 693978001606 active site 693978001607 catalytic site [active] 693978001608 substrate binding site [chemical binding]; other site 693978001609 exodeoxyribonuclease X; Provisional; Region: PRK07983 693978001610 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 693978001611 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 693978001612 Ligand Binding Site [chemical binding]; other site 693978001613 This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly...; Region: PAPS_reductase; cd01713 693978001614 Active Sites [active] 693978001615 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 693978001616 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 693978001617 Walker A/P-loop; other site 693978001618 ATP binding site [chemical binding]; other site 693978001619 Domain of unknown function (DUF1832); Region: DUF1832; cl07463 693978001620 AAA-like domain; Region: AAA_10; pfam12846 693978001621 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 693978001622 Walker A motif; other site 693978001623 ATP binding site [chemical binding]; other site 693978001624 Walker B motif; other site 693978001625 Bacterial proteins similar to Porphyromonas gingivalis HmuY; Region: HmuY_like; cd07472 693978001626 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 693978001627 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 693978001628 N-terminal plug; other site 693978001629 ligand-binding site [chemical binding]; other site 693978001630 Ppx/GppA phosphatase family; Region: Ppx-GppA; cl15449 693978001631 polyphosphate kinase; Provisional; Region: PRK05443 693978001632 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 693978001633 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 693978001634 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 693978001635 domain interface [polypeptide binding]; other site 693978001636 active site 693978001637 catalytic site [active] 693978001638 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 693978001639 putative active site [active] 693978001640 catalytic site [active] 693978001641 Domain of unknown function (DUF4190); Region: DUF4190; pfam13828 693978001642 Protein of unknown function (DUF2752); Region: DUF2752; pfam10825 693978001643 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 693978001644 amidase catalytic site [active] 693978001645 Zn binding residues [ion binding]; other site 693978001646 substrate binding site [chemical binding]; other site 693978001647 Putative peptidoglycan binding domain; Region: PG_binding_1; cl15437 693978001648 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 693978001649 homodimer interface [polypeptide binding]; other site 693978001650 substrate-cofactor binding pocket; other site 693978001651 pyridoxal 5'-phosphate binding site [chemical binding]; other site 693978001652 catalytic residue [active] 693978001653 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 693978001654 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; cl01951 693978001655 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 693978001656 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 693978001657 NAD(P) binding site [chemical binding]; other site 693978001658 active site 693978001659 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 693978001660 acyl-CoA esterase; Provisional; Region: PRK10673 693978001661 Pyridoxine 5'-phosphate (PNP) synthase domain; pyridoxal 5'-phosphate is the active form of vitamin B6 that acts as an essential, ubiquitous coenzyme in amino acid metabolism. In bacteria, formation of pyridoxine 5'-phosphate is a step in the...; Region: PNPsynthase; cd00003 693978001662 active site 693978001663 hydrophilic channel; other site 693978001664 dimerization interface [polypeptide binding]; other site 693978001665 catalytic residues [active] 693978001666 active site lid [active] 693978001667 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 693978001668 Mechanosensitive ion channel; Region: MS_channel; pfam00924 693978001669 Protein of unknown function (DUF456); Region: DUF456; cl01069 693978001670 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 693978001671 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 693978001672 active site 693978001673 Zn binding site [ion binding]; other site 693978001674 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 693978001675 ligand binding site [chemical binding]; other site 693978001676 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 693978001677 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 693978001678 ligand binding site [chemical binding]; other site 693978001679 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 693978001680 catalytic center binding site [active] 693978001681 ATP binding site [chemical binding]; other site 693978001682 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 693978001683 tandem repeat interface [polypeptide binding]; other site 693978001684 oligomer interface [polypeptide binding]; other site 693978001685 active site residues [active] 693978001686 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 693978001687 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 693978001688 tandem repeat interface [polypeptide binding]; other site 693978001689 oligomer interface [polypeptide binding]; other site 693978001690 active site residues [active] 693978001691 D-Tyrosyl-tRNAtyr deacylases; a class of tRNA-dependent hydrolases which are capable of hydrolyzing the ester bond of D-Tyrosyl-tRNA reducing the level of cellular D-Tyrosine while recycling the peptidyl-tRNA; found in bacteria and in eukaryotes but not...; Region: Dtyr_deacylase; cd00563 693978001692 dimerization interface [polypeptide binding]; other site 693978001693 putative tRNAtyr binding site [nucleotide binding]; other site 693978001694 putative active site [active] 693978001695 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 693978001696 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 693978001697 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 693978001698 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 basis...; Region: HIT_like; cl00228 693978001699 nucleotide binding site/active site [active] 693978001700 HIT family signature motif; other site 693978001701 catalytic residue [active] 693978001702 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 693978001703 Walker A motif; other site 693978001704 ATP binding site [chemical binding]; other site 693978001705 ATP-dependent protease ATP-binding subunit HslU; Provisional; Region: hslU; PRK05201 693978001706 Walker B motif; other site 693978001707 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 693978001708 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 693978001709 catalytic residues [active] 693978001710 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 693978001711 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 693978001712 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 693978001713 S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression; Region: S1_Tex; cd05685 693978001714 RNA binding site [nucleotide binding]; other site 693978001715 pyruvate dehydrogenase subunit beta; Validated; Region: PRK09212 693978001716 Pyrimidine (PYR) binding domain of the beta subunits of the E1 components of human pyruvate dehydrogenase complex (E1- PDHc) and related proteins; Region: TPP_PYR_E1-PDHc-beta_like; cd07036 693978001717 alpha subunit interface [polypeptide binding]; other site 693978001718 TPP binding site [chemical binding]; other site 693978001719 heterodimer interface [polypeptide binding]; other site 693978001720 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 693978001721 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 693978001722 glyceraldehyde-3-phosphate dehydrogenase; Provisional; Region: PTZ00023 693978001723 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 693978001724 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 693978001725 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 693978001726 active site 693978001727 ADP/pyrophosphate binding site [chemical binding]; other site 693978001728 dimerization interface [polypeptide binding]; other site 693978001729 allosteric effector site; other site 693978001730 fructose-1,6-bisphosphate binding site; other site 693978001731 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 693978001732 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 693978001733 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 693978001734 N-terminal plug; other site 693978001735 ligand-binding site [chemical binding]; other site 693978001736 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 693978001737 trigger factor; Region: tig; TIGR00115 693978001738 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; cl04011 693978001739 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 693978001740 putative active site [active] 693978001741 putative catalytic site [active] 693978001742 putative DNA binding site [nucleotide binding]; other site 693978001743 putative phosphate binding site [ion binding]; other site 693978001744 metal binding site A [ion binding]; metal-binding site 693978001745 putative AP binding site [nucleotide binding]; other site 693978001746 putative metal binding site B [ion binding]; other site 693978001747 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 693978001748 Dihydrouridine synthase-like (DUS-like) FMN-binding domain. Members of this family catalyze the reduction of the 5,6-double bond of a uridine residue on tRNA. Dihydrouridine modification of tRNA is widely observed in prokaryotes and eukaryotes, and also...; Region: DUS_like_FMN; cd02801 693978001749 FMN binding site [chemical binding]; other site 693978001750 active site 693978001751 catalytic residues [active] 693978001752 substrate binding site [chemical binding]; other site 693978001753 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 693978001754 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 693978001755 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 693978001756 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 693978001757 dimerization interface [polypeptide binding]; other site 693978001758 active site 693978001759 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 693978001760 Peptidase family M1; Region: Peptidase_M1; pfam01433 693978001761 Zn binding site [ion binding]; other site 693978001762 HEAT repeats; Region: HEAT_2; pfam13646 693978001763 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 693978001764 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 693978001765 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 693978001766 CoA-ligase; Region: Ligase_CoA; cl02894 693978001767 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 693978001768 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 693978001769 UDP-3-O-acyl-glucosamine N-acyltransferase (LpxD): The enzyme catalyzes the transfer of 3-hydroxymyristic acid or 3-hydroxy-arachidic acid, depending on the organism, from the acyl carrier protein (ACP) to UDP-3-O-acyl-glucosamine to produce UDP-2; Region: LbH_LpxD; cd03352 693978001770 trimer interface [polypeptide binding]; other site 693978001771 active site 693978001772 UDP-GlcNAc binding site [chemical binding]; other site 693978001773 lipid binding site [chemical binding]; lipid-binding site 693978001774 elongation factor P; Validated; Region: PRK00529 693978001775 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 693978001776 S1_EF-P_repeat_1: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_1; cd04470 693978001777 RNA binding site [nucleotide binding]; other site 693978001778 S1_EF-P_repeat_2: Translation elongation factor P (EF-P), S1-like RNA-binding domain, repeat 1. EF-P stimulates the peptidyltransferase activity in the prokaryotic 70S ribosome. EF-P enhances the synthesis of certain dipeptides with...; Region: S1_EF-P_repeat_2; cd05794 693978001779 RNA binding site [nucleotide binding]; other site 693978001780 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 693978001781 UDP-N-acetylglucosamine O-acyltransferase (UDP-GlcNAc acyltransferase): Proteins in this family catalyze the transfer of (R)-3-hydroxymyristic acid from its acyl carrier protein thioester to UDP-GlcNAc. It is the first enzyme in the lipid A biosynthetic...; Region: LbH_UDP-GlcNAc_AT; cd03351 693978001782 active site 693978001783 bifunctional UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase/(3R)-hydroxymyristoyl-[acyl-carrier-protein] dehydratase; Reviewed; Region: PRK13188 693978001784 UDP-3-O-acyl-N-acetylglucosamine deacetylase [Cell envelope biogenesis, outer membrane]; Region: LpxC; cl00512 693978001785 FabZ is a 17kD beta-hydroxyacyl-acyl carrier protein (ACP) dehydratase that primarily catalyzes the dehydration of beta-hydroxyacyl-ACP to trans-2-acyl-ACP, the third step in the elongation phase of the bacterial/ plastid, type II, fatty-acid...; Region: FabZ; cd01288 693978001786 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 693978001787 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 693978001788 Zn2+ binding site [ion binding]; other site 693978001789 Mg2+ binding site [ion binding]; other site 693978001790 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 693978001791 active site 693978001792 Fructose-1,6-bisphosphatase, an enzyme that catalyzes the hydrolysis of fructose-1,6-biphosphate into fructose-6-phosphate and is critical in gluconeogenesis pathway. The alignment model also includes chloroplastic FBPases and sedoheptulose-1; Region: FBPase; cd00354 693978001793 metal binding site [ion binding]; metal-binding site 693978001794 active site 693978001795 Aspartokinases [Amino acid transport and metabolism]; Region: LysC; COG0527 693978001796 Amino Acid Kinases (AAK) superfamily, catalytic domain; present in such enzymes like N-acetylglutamate kinase (NAGK), carbamate kinase (CK), aspartokinase (AK), glutamate-5-kinase (G5K) and UMP kinase (UMPK). The AAK superfamily includes kinases that...; Region: AAK; cl00452 693978001797 nucleotide binding site [chemical binding]; other site 693978001798 substrate binding site [chemical binding]; other site 693978001799 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 693978001800 putative acyl-acceptor binding pocket; other site 693978001801 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 693978001802 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 693978001803 active site 693978001804 catalytic site [active] 693978001805 substrate binding site [chemical binding]; other site 693978001806 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 693978001807 Bacterial DNA polymerase III alpha subunit; Region: DNA_pol3_alpha; pfam07733 693978001808 DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains...; Region: DnaE_OBF; cd04485 693978001809 generic binding surface II; other site 693978001810 generic binding surface I; other site 693978001811 Ribosomal protein S15 (prokaryotic)_S13 (eukaryotic) binds the central domain of 16S rRNA and is required for assembly of the small ribosomal subunit and for intersubunit association, thus representing a key element in the assembly of the whole ribosome; Region: Ribosomal_S15p_S13e; cd00353 693978001812 16S/18S rRNA binding site [nucleotide binding]; other site 693978001813 S13e-L30e interaction site [polypeptide binding]; other site 693978001814 25S rRNA binding site [nucleotide binding]; other site 693978001815 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 693978001816 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 693978001817 RNase E interface [polypeptide binding]; other site 693978001818 trimer interface [polypeptide binding]; other site 693978001819 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 693978001820 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 693978001821 RNase E interface [polypeptide binding]; other site 693978001822 trimer interface [polypeptide binding]; other site 693978001823 active site 693978001824 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 693978001825 putative nucleic acid binding region [nucleotide binding]; other site 693978001826 G-X-X-G motif; other site 693978001827 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 693978001828 RNA binding site [nucleotide binding]; other site 693978001829 domain interface; other site 693978001830 37-kD nucleoid-associated bacterial protein; Region: NA37; cl15473 693978001831 malate dehydrogenase; Reviewed; Region: PRK06223 693978001832 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 693978001833 dimer interface [polypeptide binding]; other site 693978001834 NAD(P) binding site [chemical binding]; other site 693978001835 tetramer (dimer of dimers) interface [polypeptide binding]; other site 693978001836 substrate binding site [chemical binding]; other site 693978001837 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 693978001838 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 693978001839 ATP binding site [chemical binding]; other site 693978001840 putative Mg++ binding site [ion binding]; other site 693978001841 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 693978001842 nucleotide binding region [chemical binding]; other site 693978001843 ATP-binding site [chemical binding]; other site 693978001844 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 693978001845 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 693978001846 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 693978001847 putative active site [active] 693978001848 substrate binding site [chemical binding]; other site 693978001849 putative cosubstrate binding site; other site 693978001850 catalytic site [active] 693978001851 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 693978001852 substrate binding site [chemical binding]; other site 693978001853 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 693978001854 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_aspartate_rich; cd04823 693978001855 dimer interface [polypeptide binding]; other site 693978001856 active site 693978001857 aspartate-rich active site metal binding site; other site 693978001858 allosteric magnesium binding site [ion binding]; other site 693978001859 Schiff base residues; other site 693978001860 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 693978001861 Ribosomal protein S16; Region: Ribosomal_S16; cl00368 693978001862 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 693978001863 RimM N-terminal domain; Region: RimM; pfam01782 693978001864 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 693978001865 anaerobic ribonucleotide reductase-activating protein; Provisional; Region: nrdG; cl15804 693978001866 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 693978001867 Bacterial sugar transferase; Region: Bac_transf; cl00939 693978001868 Permease; Region: Permease; cl00510 693978001869 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 693978001870 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 693978001871 Walker A/P-loop; other site 693978001872 ATP binding site [chemical binding]; other site 693978001873 Q-loop/lid; other site 693978001874 ABC transporter signature motif; other site 693978001875 Walker B; other site 693978001876 D-loop; other site 693978001877 H-loop/switch region; other site 693978001878 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 693978001879 Peptidase family M48; Region: Peptidase_M48; cl12018 693978001880 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 693978001881 AMP-binding enzyme; Region: AMP-binding; cl15778 693978001882 Mevalonate pyrophosphate decarboxylase [Lipid metabolism]; Region: MVD1; COG3407 693978001883 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_1; cd08352 693978001884 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 693978001885 putative metal binding site [ion binding]; other site 693978001886 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 693978001887 ATP-grasp domain; Region: ATP-grasp_4; cl03087 693978001888 AIR carboxylase; Region: AIRC; cl00310 693978001889 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 693978001890 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 693978001891 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 693978001892 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 693978001893 active site 693978001894 HIGH motif; other site 693978001895 dimer interface [polypeptide binding]; other site 693978001896 KMSKS motif; other site 693978001897 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 693978001898 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 693978001899 Protein of unknown function (DUF541); Region: SIMPL; cl01077 693978001900 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 693978001901 RNA/DNA hybrid binding site [nucleotide binding]; other site 693978001902 active site 693978001903 replicative DNA helicase; Region: DnaB; TIGR00665 693978001904 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 693978001905 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 693978001906 Walker A motif; other site 693978001907 ATP binding site [chemical binding]; other site 693978001908 Walker B motif; other site 693978001909 DNA binding loops [nucleotide binding] 693978001910 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 693978001911 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 693978001912 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; cl03652 693978001913 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 693978001914 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 693978001915 dimer interface [polypeptide binding]; other site 693978001916 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 693978001917 active site 693978001918 Fe binding site [ion binding]; other site 693978001919 fumarylacetoacetase; Region: PLN02856 693978001920 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 693978001921 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 693978001922 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 693978001923 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 693978001924 glycerol-3-phosphate dehydrogenase, anaerobic, B subunit; Region: glycerol3P_GlpB; TIGR03378 693978001925 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 693978001926 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 693978001927 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 693978001928 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 693978001929 This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity. In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily...; Region: ABC_putative_ATPase; cd03269 693978001930 Walker A/P-loop; other site 693978001931 ATP binding site [chemical binding]; other site 693978001932 Q-loop/lid; other site 693978001933 ABC transporter signature motif; other site 693978001934 Walker B; other site 693978001935 D-loop; other site 693978001936 H-loop/switch region; other site 693978001937 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 693978001938 chaperone protein DnaJ; Provisional; Region: PRK14289 693978001939 DnaJ domain or J-domain. DnaJ/Hsp40 (heat shock protein 40) proteins are highly conserved and play crucial roles in protein translation, folding, unfolding, translocation, and degradation. They act primarily by stimulating the ATPase activity of Hsp70s; Region: DnaJ; cd06257 693978001940 HSP70 interaction site [polypeptide binding]; other site 693978001941 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 693978001942 Zn binding sites [ion binding]; other site 693978001943 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 693978001944 dimer interface [polypeptide binding]; other site 693978001945 Molecular chaperone GrpE (heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: GrpE; COG0576 693978001946 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 693978001947 dimer interface [polypeptide binding]; other site 693978001948 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 693978001949 manganese transport protein MntH; Reviewed; Region: PRK00701; cl15845 693978001950 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 693978001951 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 693978001952 prolyl-tRNA synthetase; Provisional; Region: PRK08661 693978001953 Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: ProRS_core_arch_euk; cd00778 693978001954 dimer interface [polypeptide binding]; other site 693978001955 motif 1; other site 693978001956 active site 693978001957 motif 2; other site 693978001958 motif 3; other site 693978001959 ProRS Prolyl-anticodon binding domain, long version found predominantly in eukaryotes and archaea. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in...; Region: ProRS_anticodon_zinc; cd00862 693978001960 anticodon binding site; other site 693978001961 zinc-binding site [ion binding]; other site 693978001962 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 693978001963 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 693978001964 Ribulose-5-phosphate 3-epimerase (RPE). This enzyme catalyses the interconversion of D-ribulose 5-phosphate (Ru5P) into D-xylulose 5-phosphate, as part of the Calvin cycle (reductive pentose phosphate pathway) in chloroplasts and in the oxidative pentose...; Region: RPE; cd00429 693978001965 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 693978001966 substrate binding site [chemical binding]; other site 693978001967 hexamer interface [polypeptide binding]; other site 693978001968 metal binding site [ion binding]; metal-binding site 693978001969 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 693978001970 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 693978001971 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 693978001972 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 693978001973 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 693978001974 DNA binding residues [nucleotide binding] 693978001975 Glutathione (GSH) peroxidase family; tetrameric selenoenzymes that catalyze the reduction of a variety of hydroperoxides including lipid peroxidases, using GSH as a specific electron donor substrate. GSH peroxidase contains one selenocysteine residue per...; Region: GSH_Peroxidase; cd00340 693978001976 catalytic residues [active] 693978001977 dimer interface [polypeptide binding]; other site 693978001978 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 693978001979 Ligand binding site; other site 693978001980 oligomer interface; other site 693978001981 Bacterial SH3 domain; Region: SH3_3; cl02551 693978001982 aspartate aminotransferase; Provisional; Region: PRK05764 693978001983 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 693978001984 pyridoxal 5'-phosphate binding site [chemical binding]; other site 693978001985 homodimer interface [polypeptide binding]; other site 693978001986 catalytic residue [active] 693978001987 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 693978001988 This CD includes PGM2 (phosphoglucomutase 2) and PGM2L1 (phosphoglucomutase 2-like 1). The mammalian PGM2 is thought to be a phosphopentomutase that catalyzes the conversion of the nucleoside breakdown products, ribose-1-phosphate and...; Region: PGM2; cd05799 693978001989 active site 693978001990 substrate binding site [chemical binding]; other site 693978001991 metal binding site [ion binding]; metal-binding site 693978001992 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 693978001993 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 693978001994 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 693978001995 Ligand binding site; other site 693978001996 Putative Catalytic site; other site 693978001997 DXD motif; other site 693978001998 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 693978001999 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 693978002000 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 693978002001 active site 693978002002 HIGH motif; other site 693978002003 nucleotide binding site [chemical binding]; other site 693978002004 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 693978002005 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 693978002006 active site 693978002007 KMSKS motif; other site 693978002008 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 693978002009 tRNA binding surface [nucleotide binding]; other site 693978002010 anticodon binding site; other site 693978002011 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 693978002012 Protein of unknown function (DUF4241); Region: DUF4241; pfam14025 693978002013 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 693978002014 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 693978002015 dimer interface [polypeptide binding]; other site 693978002016 substrate binding site [chemical binding]; other site 693978002017 ATP binding site [chemical binding]; other site 693978002018 AMP-binding enzyme; Region: AMP-binding; cl15778 693978002019 Vacuole effluxer Atg22 like; Region: ATG22; pfam11700 693978002020 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 693978002021 acetyl-CoA C-acetyltransferase; Region: PLN02644 693978002022 Thiolase are ubiquitous enzymes that catalyze the reversible thiolytic cleavage of 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA, a 2-step reaction involving a covalent intermediate formed with a catalytic cysteine. They are found in prokaryotes and...; Region: thiolase; cd00751 693978002023 dimer interface [polypeptide binding]; other site 693978002024 active site 693978002025 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 693978002026 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 693978002027 X-Prolyl Aminopeptidase 2. E.C. 3.4.11.9. Also known as X-Pro aminopeptidase, proline aminopeptidase, aminopeptidase P, and aminoacylproline aminopeptidase. Catalyses release of any N-terminal amino acid, including proline, that is linked with proline; Region: APP; cd01085 693978002028 active site 693978002029 Delta(1)-pyrroline-5-carboxylate dehydrogenase, ALDH families 4 and 17; Region: ALDH_F4-17_P5CDH; cd07123 693978002030 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 693978002031 Glutamate binding site [chemical binding]; other site 693978002032 NAD binding site [chemical binding]; other site 693978002033 catalytic residues [active] 693978002034 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 693978002035 AMP-binding enzyme; Region: AMP-binding; cl15778 693978002036 2-acyl-glycerophospho-ethanolamine acyltransferase; Validated; Region: PRK08633 693978002037 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 693978002038 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 693978002039 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 693978002040 AZL_007920/MXAN_0976 family protein; Region: AZL_007920_fam; TIGR04052 693978002041 glycine dehydrogenase; Provisional; Region: PRK05367 693978002042 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 693978002043 tetramer interface [polypeptide binding]; other site 693978002044 pyridoxal 5'-phosphate binding site [chemical binding]; other site 693978002045 catalytic residue [active] 693978002046 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 693978002047 tetramer interface [polypeptide binding]; other site 693978002048 pyridoxal 5'-phosphate binding site [chemical binding]; other site 693978002049 catalytic residue [active] 693978002050 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 693978002051 NADH(P)-binding; Region: NAD_binding_10; pfam13460 693978002052 NAD binding site [chemical binding]; other site 693978002053 active site 693978002054 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 693978002055 dimer interface [polypeptide binding]; other site 693978002056 catalytic triad [active] 693978002057 peroxidatic and resolving cysteines [active] 693978002058 NADH:ubiquinone oxidoreductase subunit 2 (chain N) [Energy production and conversion]; Region: NuoN; COG1007 693978002059 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 693978002060 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 693978002061 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 693978002062 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 693978002063 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 693978002064 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; cl14187 693978002065 NADH-ubiquinone/plastoquinone oxidoreductase chain 4L; Region: Oxidored_q2; cl00492 693978002066 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 693978002067 NADH dehydrogenase subunit J; Provisional; Region: PRK06433; cl14634 693978002068 NADH dehydrogenase subunit I; Provisional; Region: PRK05888 693978002069 4Fe-4S binding domain; Region: Fer4; cl02805 693978002070 4Fe-4S binding domain; Region: Fer4; cl02805 693978002071 NADH dehydrogenase; Region: NADHdh; cl00469 693978002072 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 693978002073 NADH-quinone oxidoreductase, chain G; Region: NuoG; TIGR01973 693978002074 catalytic loop [active] 693978002075 iron binding site [ion binding]; other site 693978002076 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; cl11210 693978002077 NADH-quinone oxidoreductase, F subunit; Region: nuoF_fam; TIGR01959 693978002078 SLBB domain; Region: SLBB; pfam10531 693978002079 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; cl11211 693978002080 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 693978002081 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E subfamily; Nuo, also called respiratory chain Complex 1, is the entry point for electrons into the respiratory chains of bacteria and the mitochondria of eukaryotes; Region: TRX_Fd_NuoE; cd03064 693978002082 putative dimer interface [polypeptide binding]; other site 693978002083 [2Fe-2S] cluster binding site [ion binding]; other site 693978002084 Nickel-dependent hydrogenase; Region: NiFeSe_Hases; cl00417 693978002085 Respiratory-chain NADH dehydrogenase, 49 Kd subunit; Region: Complex1_49kDa; pfam00346 693978002086 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 693978002087 NADH dehydrogenase subunit B; Provisional; Region: PRK14820 693978002088 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl15792 693978002089 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 693978002090 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 693978002091 Coenzyme A binding pocket [chemical binding]; other site 693978002092 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; cl01049 693978002093 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 693978002094 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 693978002095 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 693978002096 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 693978002097 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 693978002098 Repair protein; Region: Repair_PSII; cl01535 693978002099 Repair protein; Region: Repair_PSII; cl01535 693978002100 LemA family; Region: LemA; cl00742 693978002101 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cd00209 693978002102 folate binding site [chemical binding]; other site 693978002103 NADP+ binding site [chemical binding]; other site 693978002104 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 693978002105 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 693978002106 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 693978002107 FeS/SAM binding site; other site 693978002108 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 693978002109 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 693978002110 substrate binding site; other site 693978002111 tetramer interface; other site 693978002112 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 693978002113 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 693978002114 NAD binding site [chemical binding]; other site 693978002115 substrate binding site [chemical binding]; other site 693978002116 homodimer interface [polypeptide binding]; other site 693978002117 active site 693978002118 Cupin domain; Region: Cupin_2; cl09118 693978002119 Bacterial sugar transferase; Region: Bac_transf; cl00939 693978002120 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 693978002121 3-amino-5-hydroxybenzoic acid synthase family (AHBA_syn). AHBA_syn family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The members of this CD are involved in various biosynthetic pathways for secondary...; Region: AHBA_syn; cd00616 693978002122 inhibitor-cofactor binding pocket; inhibition site 693978002123 pyridoxal 5'-phosphate binding site [chemical binding]; other site 693978002124 catalytic residue [active] 693978002125 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 693978002126 classical (c) SDRs; Region: SDR_c; cd05233 693978002127 NAD(P) binding site [chemical binding]; other site 693978002128 active site 693978002129 Phosphopantetheine attachment site; Region: PP-binding; cl09936 693978002130 Predicted enzyme involved in methoxymalonyl-ACP biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FkbH; COG3882 693978002131 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 693978002132 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 693978002133 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 693978002134 dimer interface [polypeptide binding]; other site 693978002135 substrate binding site [chemical binding]; other site 693978002136 metal binding site [ion binding]; metal-binding site 693978002137 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 693978002138 Ketoacyl-acyl carrier protein synthase III (KASIII) initiates the elongation in type II fatty acid synthase systems. It is found in bacteria and plants. Elongation of fatty acids in the type II systems occurs by Claisen condensation of malonyl-acyl...; Region: KAS_III; cd00830 693978002139 dimer interface [polypeptide binding]; other site 693978002140 active site 693978002141 CoA binding pocket [chemical binding]; other site 693978002142 Putative Acyltransferase (AT), Left-handed parallel beta-Helix (LbH) domain; This group is composed of mostly uncharacterized proteins containing an N-terminal helical subdomain followed by a LbH domain. The alignment contains 6 turns, each containing...; Region: LbH_AT_putative; cd03360 693978002143 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 693978002144 putative trimer interface [polypeptide binding]; other site 693978002145 putative CoA binding site [chemical binding]; other site 693978002146 Bacterial sugar transferase; Region: Bac_transf; cl00939 693978002147 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 693978002148 putative ADP-binding pocket [chemical binding]; other site 693978002149 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 693978002150 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 693978002151 active site 693978002152 dimer interface [polypeptide binding]; other site 693978002153 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 693978002154 Ligand Binding Site [chemical binding]; other site 693978002155 Molecular Tunnel; other site 693978002156 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 693978002157 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 693978002158 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 693978002159 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 693978002160 Probable Catalytic site; other site 693978002161 twin-arg-translocated uncharacterized repeat protein; Region: RR_plus_rpt_1; TIGR03808 693978002162 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 693978002163 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 693978002164 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 693978002165 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 693978002166 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 693978002167 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 693978002168 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 693978002169 NAD binding site [chemical binding]; other site 693978002170 substrate binding site [chemical binding]; other site 693978002171 homodimer interface [polypeptide binding]; other site 693978002172 active site 693978002173 tyrosine kinase; Provisional; Region: PRK11519 693978002174 Chain length determinant protein; Region: Wzz; cl15801 693978002175 Chain length determinant protein; Region: Wzz; cl15801 693978002176 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 693978002177 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 693978002178 SLBB domain; Region: SLBB; pfam10531 693978002179 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 693978002180 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 693978002181 NAD(P) binding site [chemical binding]; other site 693978002182 homodimer interface [polypeptide binding]; other site 693978002183 substrate binding site [chemical binding]; other site 693978002184 active site 693978002185 RecX family; Region: RecX; cl00936 693978002186 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 693978002187 Serine-glycine hydroxymethyltransferase (SHMT). This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). SHMT carries out interconversion of serine and glycine; it catalyzes the transfer of hydroxymethyl...; Region: SHMT; cd00378 693978002188 dimer interface [polypeptide binding]; other site 693978002189 active site 693978002190 glycine-pyridoxal phosphate binding site [chemical binding]; other site 693978002191 folate binding site [chemical binding]; other site 693978002192 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 693978002193 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 693978002194 active site 693978002195 dimer interface [polypeptide binding]; other site 693978002196 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 693978002197 dimer interface [polypeptide binding]; other site 693978002198 active site 693978002199 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14185 693978002200 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 693978002201 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 693978002202 homodimer interface [polypeptide binding]; other site 693978002203 NADP binding site [chemical binding]; other site 693978002204 substrate binding site [chemical binding]; other site 693978002205 chaperone protein HchA; Provisional; Region: PRK04155 693978002206 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 693978002207 conserved cys residue [active] 693978002208 short chain dehydrogenase; Provisional; Region: PRK06179 693978002209 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 693978002210 NADP binding site [chemical binding]; other site 693978002211 active site 693978002212 steroid binding site; other site 693978002213 EPSP synthase domain. 3-phosphoshikimate 1-carboxyvinyltransferase (5-enolpyruvylshikimate-3-phosphate synthase) (EC 2.5.1.19) catalyses the reaction between shikimate-3-phosphate (S3P) and phosphoenolpyruvate (PEP) to form...; Region: EPSP_synthase; cd01556 693978002214 hinge; other site 693978002215 active site 693978002216 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain putative pyrophosphatase YpjD from Bacillus subtilis and its bacterial homologs; Region: NTP-PPase_BsYpjD; cd11531 693978002217 homodimer interface [polypeptide binding]; other site 693978002218 metal binding site [ion binding]; metal-binding site 693978002219 Ribosomal protein L31; Region: Ribosomal_L31; cl00377 693978002220 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: alt_bact_glmU; TIGR03991 693978002221 Sugar nucleotidyl transferase; Region: NTP_transf_4; pfam13562 693978002222 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 693978002223 putative trimer interface [polypeptide binding]; other site 693978002224 putative CoA binding site [chemical binding]; other site 693978002225 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 693978002226 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 693978002227 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 693978002228 FeS/SAM binding site; other site 693978002229 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 693978002230 Arginyl tRNA synthetase N terminal domain; Region: Arg_tRNA_synt_N; cl04104 693978002231 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 693978002232 active site 693978002233 HIGH motif; other site 693978002234 KMSK motif region; other site 693978002235 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 693978002236 tRNA binding surface [nucleotide binding]; other site 693978002237 anticodon binding site; other site 693978002238 starch binding outer membrane protein SusD; Region: SusD; cl15876 693978002239 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 693978002240 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 693978002241 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 693978002242 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 693978002243 RNA/DNA hybrid binding site [nucleotide binding]; other site 693978002244 active site 693978002245 membrane protein insertase; Provisional; Region: PRK01318 693978002246 60Kd inner membrane protein; Region: 60KD_IMP; cl00489 693978002247 CTP synthetase; Validated; Region: pyrG; PRK05380 693978002248 CTP synthetase (CTPs) is a two-domain protein, which consists of an N-terminal synthetase domain and C-terminal glutaminase domain. The enzymes hydrolyze the amide bond of glutamine to ammonia and glutamate at the glutaminase domains and transfer nascent...; Region: CTGs; cd03113 693978002249 Catalytic site [active] 693978002250 active site 693978002251 UTP binding site [chemical binding]; other site 693978002252 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 693978002253 active site 693978002254 putative oxyanion hole; other site 693978002255 catalytic triad [active] 693978002256 protein RecA; Region: tigrfam_recA; TIGR02012 693978002257 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 693978002258 hexamer interface [polypeptide binding]; other site 693978002259 Walker A motif; other site 693978002260 ATP binding site [chemical binding]; other site 693978002261 Walker B motif; other site 693978002262 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 693978002263 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 693978002264 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 693978002265 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 693978002266 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 693978002267 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 693978002268 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 693978002269 putative Iron-sulfur protein interface [polypeptide binding]; other site 693978002270 proximal heme binding site [chemical binding]; other site 693978002271 distal heme binding site [chemical binding]; other site 693978002272 putative dimer interface [polypeptide binding]; other site 693978002273 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 693978002274 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 693978002275 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 693978002276 putative catalytic site [active] 693978002277 putative metal binding site [ion binding]; other site 693978002278 putative phosphate binding site [ion binding]; other site 693978002279 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 693978002280 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cl11442 693978002281 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 693978002282 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 693978002283 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cl00083 693978002284 CRISPR-associated protein Cas9/Csn1, subtype II/NMEMI; Region: cas_Csn1; TIGR01865 693978002285 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 693978002286 2-Nitropropane dioxygenase (NPD), one of the nitroalkane oxidizing enzyme families, catalyzes oxidative denitrification of nitroalkanes to their corresponding carbonyl compounds and nitrites. NDP is a member of the NAD(P)H-dependent flavin oxidoreductase...; Region: NPD_like; cd04730 693978002287 FMN binding site [chemical binding]; other site 693978002288 substrate binding site [chemical binding]; other site 693978002289 putative catalytic residue [active] 693978002290 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 693978002291 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 693978002292 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 693978002293 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 693978002294 Protein of unknown function (DUF2480); Region: DUF2480; pfam10652 693978002295 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 693978002296 Deoxyhypusine synthase; Region: DS; cl00826 693978002297 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 693978002298 exosortase F-associated protein; Region: flavo_near_exo; TIGR04127 693978002299 NifU-like domain; Region: NifU; cl00484 693978002300 Domain of unknown function DUF59; Region: DUF59; cl00941 693978002301 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 693978002302 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 693978002303 Walker A motif; other site 693978002304 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 693978002305 Bacterial SH3 domain; Region: SH3_3; cl02551 693978002306 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 693978002307 BON domain; Region: BON; cl02771 693978002308 YegX is an uncharacterized bacterial protein with a glycosyl hydrolase family 25 (GH25) catalytic domain that is similar in sequence to the CH-type (Chalaropsis-type) lysozymes of the GH25 family of endolysins; Region: GH25_YegX-like; cd06524 693978002309 active site 693978002310 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 693978002311 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 693978002312 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 693978002313 N-terminal plug; other site 693978002314 ligand-binding site [chemical binding]; other site 693978002315 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 693978002316 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 693978002317 catalytic residues [active] 693978002318 Haem-binding domain; Region: Haem_bd; pfam14376 693978002319 Bacterial Ig-like domain; Region: Big_5; cl01012 693978002320 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 693978002321 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 693978002322 substrate binding site [chemical binding]; other site 693978002323 oxyanion hole (OAH) forming residues; other site 693978002324 trimer interface [polypeptide binding]; other site 693978002325 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 693978002326 active site 693978002327 catalytic residues [active] 693978002328 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 693978002329 Protein of unknown function DUF72; Region: DUF72; cl00777 693978002330 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 693978002331 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 693978002332 Class I ribonucleotide reductase; Region: RNR_I; cd01679 693978002333 active site 693978002334 dimer interface [polypeptide binding]; other site 693978002335 catalytic residues [active] 693978002336 effector binding site; other site 693978002337 R2 peptide binding site; other site 693978002338 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 693978002339 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 693978002340 dimer interface [polypeptide binding]; other site 693978002341 putative radical transfer pathway; other site 693978002342 diiron center [ion binding]; other site 693978002343 tyrosyl radical; other site 693978002344 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 693978002345 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 693978002346 active site 693978002347 glutamate dehydrogenase; Provisional; Region: PRK09414 693978002348 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 693978002349 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 693978002350 NAD(P) binding site [chemical binding]; other site 693978002351 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 693978002352 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 693978002353 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 693978002354 heme-binding site [chemical binding]; other site 693978002355 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 693978002356 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 693978002357 Helix-turn-helix domains; Region: HTH; cl00088 693978002358 AsnC family; Region: AsnC_trans_reg; pfam01037 693978002359 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 693978002360 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 693978002361 starch binding outer membrane protein SusD; Region: SusD; cd08977 693978002362 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 693978002363 RuvA N terminal domain; Region: RuvA_N; pfam01330 693978002364 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 693978002365 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 693978002366 active site 693978002367 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 693978002368 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 693978002369 putative active site [active] 693978002370 putative metal binding site [ion binding]; other site 693978002371 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 693978002372 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 693978002373 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 693978002374 Peroxiredoxin (PRX) family, Bacterioferritin comigratory protein (BCP) subfamily; composed of thioredoxin-dependent thiol peroxidases, widely expressed in pathogenic bacteria, that protect cells against toxicity from reactive oxygen species by reducing...; Region: PRX_BCP; cd03017 693978002375 catalytic triad [active] 693978002376 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 693978002377 endonuclease III; Region: ENDO3c; smart00478 693978002378 minor groove reading motif; other site 693978002379 helix-hairpin-helix signature motif; other site 693978002380 substrate binding pocket [chemical binding]; other site 693978002381 active site 693978002382 elongation factor Ts; Provisional; Region: tsf; PRK09377 693978002383 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 693978002384 Elongation factor TS; Region: EF_TS; pfam00889 693978002385 Elongation factor TS; Region: EF_TS; pfam00889 693978002386 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 693978002387 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 693978002388 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 693978002389 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 693978002390 HIGH motif; other site 693978002391 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 693978002392 active site 693978002393 KMSKS motif; other site 693978002394 GH3 auxin-responsive promoter; Region: GH3; cl04006 693978002395 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 693978002396 Clp amino terminal domain; Region: Clp_N; pfam02861 693978002397 Clp amino terminal domain; Region: Clp_N; pfam02861 693978002398 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 693978002399 Walker A motif; other site 693978002400 ATP binding site [chemical binding]; other site 693978002401 Walker B motif; other site 693978002402 arginine finger; other site 693978002403 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 693978002404 Walker A motif; other site 693978002405 ATP binding site [chemical binding]; other site 693978002406 Walker B motif; other site 693978002407 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 693978002408 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 693978002409 putative active site [active] 693978002410 catalytic residue [active] 693978002411 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 693978002412 OpgC protein; Region: OpgC_C; cl00792 693978002413 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_cladeA; cd00883 693978002414 active site clefts [active] 693978002415 zinc binding site [ion binding]; other site 693978002416 dimer interface [polypeptide binding]; other site 693978002417 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 693978002418 trimer interface [polypeptide binding]; other site 693978002419 active site 693978002420 substrate binding site [chemical binding]; other site 693978002421 CoA binding site [chemical binding]; other site 693978002422 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 693978002423 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 693978002424 putative ADP-binding pocket [chemical binding]; other site 693978002425 MBOAT, membrane-bound O-acyltransferase family; Region: MBOAT; cl00738 693978002426 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 693978002427 active site 693978002428 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 693978002429 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 693978002430 This family is most closely related to the GT1 family of glycosyltransferases. WabH in Klebsiella pneumoniae has been shown to transfer a GlcNAc residue from UDP-GlcNAc onto the acceptor GalUA residue in the cellular outer core; Region: GT1_WabH_like; cd03811 693978002431 putative ADP-binding pocket [chemical binding]; other site 693978002432 OpgC protein; Region: OpgC_C; cl00792 693978002433 OpgC protein; Region: OpgC_C; cl00792 693978002434 dihydroorotase; Reviewed; Region: PRK09236 693978002435 Superfamily of metallo-dependent hydrolases (also called amidohydrolase superfamily) is a large group of proteins that show conservation in their 3-dimensional fold (TIM barrel) and in details of their active site. The vast majority of the members have a...; Region: metallo-dependent_hydrolases; cl00281 693978002436 Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family; Region: DHOase_IIb; cd01318 693978002437 active site 693978002438 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 693978002439 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 693978002440 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 693978002441 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 693978002442 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 693978002443 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 693978002444 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 693978002445 short chain dehydrogenase; Provisional; Region: PRK07677 693978002446 NAD(P) binding site [chemical binding]; other site 693978002447 substrate binding site [chemical binding]; other site 693978002448 homotetramer interface [polypeptide binding]; other site 693978002449 active site 693978002450 homodimer interface [polypeptide binding]; other site 693978002451 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 693978002452 DHH family; Region: DHH; pfam01368 693978002453 DHHA1 domain; Region: DHHA1; pfam02272 693978002454 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 693978002455 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 693978002456 active site 693978002457 (T/H)XGH motif; other site 693978002458 Domain of unknown function (DUF3817); Region: DUF3817; cl14844 693978002459 Ribosomal protein S20; Region: Ribosomal_S20p; cl00384 693978002460 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 693978002461 active site 693978002462 metal binding site [ion binding]; metal-binding site 693978002463 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 693978002464 YjgF, YER057c, and UK114 belong to a large family of proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence similarity and no...; Region: YjgF_YER057c_UK114_family; cd00448 693978002465 homotrimer interaction site [polypeptide binding]; other site 693978002466 putative active site [active] 693978002467 enolase; Provisional; Region: eno; PRK00077 693978002468 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 693978002469 dimer interface [polypeptide binding]; other site 693978002470 metal binding site [ion binding]; metal-binding site 693978002471 substrate binding pocket [chemical binding]; other site 693978002472 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 693978002473 dimer interface [polypeptide binding]; other site 693978002474 Citrate synthase; Region: Citrate_synt; pfam00285 693978002475 active site 693978002476 citrylCoA binding site [chemical binding]; other site 693978002477 NADH binding [chemical binding]; other site 693978002478 cationic pore residues; other site 693978002479 oxalacetate/citrate binding site [chemical binding]; other site 693978002480 coenzyme A binding site [chemical binding]; other site 693978002481 catalytic triad [active] 693978002482 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 693978002483 TlpA-like family; composed of TlpA, ResA, DsbE and similar proteins. TlpA, ResA and DsbE are bacterial protein disulfide reductases with important roles in cytochrome maturation. They are membrane-anchored proteins with a soluble TRX domain containing a...; Region: TlpA_like_family; cd02966 693978002484 catalytic residues [active] 693978002485 N-Dimethylarginine dimethylaminohydrolase [Amino acid transport and metabolism]; Region: COG1834 693978002486 Amidinotransferase; Region: Amidinotransf; cl12043 693978002487 Ribosomal protein L17; Region: Ribosomal_L17; cl00356 693978002488 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 693978002489 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 693978002490 alphaNTD - beta interaction site [polypeptide binding]; other site 693978002491 alphaNTD homodimer interface [polypeptide binding]; other site 693978002492 alphaNTD - beta' interaction site [polypeptide binding]; other site 693978002493 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; cl11613 693978002494 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 693978002495 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 693978002496 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 693978002497 RNA binding surface [nucleotide binding]; other site 693978002498 Ribosomal protein S11; Region: Ribosomal_S11; cl00332 693978002499 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 693978002500 Ribosomal protein S13/S18; Region: Ribosomal_S13; cl00331 693978002501 Ribosomal protein L36; Region: Ribosomal_L36; cl00380 693978002502 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 693978002503 rRNA binding site [nucleotide binding]; other site 693978002504 predicted 30S ribosome binding site; other site 693978002505 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 693978002506 SecY translocase; Region: SecY; pfam00344 693978002507 Ribosomal protein L18e/L15; Region: Ribosomal_L18e; cl12022 693978002508 Ribosomal protein L30, which is found in eukaryotes and prokaryotes but not in archaea, is one of the smallest ribosomal proteins with a molecular mass of about 7kDa. L30 binds the 23SrRNA as well as the 5S rRNA and is one of five ribosomal proteins that...; Region: Ribosomal_L30; cd01658 693978002509 23S rRNA binding site [nucleotide binding]; other site 693978002510 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 693978002511 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 693978002512 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 693978002513 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 693978002514 5S rRNA interface [nucleotide binding]; other site 693978002515 L27 interface [polypeptide binding]; other site 693978002516 23S rRNA interface [nucleotide binding]; other site 693978002517 L5 interface [polypeptide binding]; other site 693978002518 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 693978002519 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 693978002520 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 693978002521 Ribosomal protein S8; Region: Ribosomal_S8; cl00330 693978002522 Ribosomal protein S14p/S29e; Region: Ribosomal_S14; cl00355 693978002523 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 693978002524 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 693978002525 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 693978002526 KOW motif; Region: KOW; cl00354 693978002527 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 693978002528 Ribosomal protein L14p/L23e; Region: Ribosomal_L14; cl00328 693978002529 Ribosomal protein S17; Region: Ribosomal_S17; cl00351 693978002530 Ribosomal L29 protein/HIP. L29 is a protein of the large ribosomal Subunit. A homolog, called heparin/heparan sulfate interacting protein (HIP), has also been identified in mammals. L29 is located on the surface of the large ribosomal subunit, where it...; Region: Ribosomal_L29_HIP; cd00427 693978002531 23S rRNA interface [nucleotide binding]; other site 693978002532 putative translocon interaction site; other site 693978002533 signal recognition particle (SRP54) interaction site; other site 693978002534 L23 interface [polypeptide binding]; other site 693978002535 trigger factor interaction site; other site 693978002536 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 693978002537 23S rRNA interface [nucleotide binding]; other site 693978002538 5S rRNA interface [nucleotide binding]; other site 693978002539 putative antibiotic binding site [chemical binding]; other site 693978002540 L25 interface [polypeptide binding]; other site 693978002541 L27 interface [polypeptide binding]; other site 693978002542 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 693978002543 K homology RNA-binding (KH) domain of the prokaryotic 30S small ribosomal subunit protein S3. S3 is part of the head region of the 30S ribosomal subunit and is believed to interact with mRNA as it threads its way from the latch into the channel. The KH...; Region: 30S_S3_KH; cd02412 693978002544 G-X-X-G motif; other site 693978002545 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 693978002546 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 693978002547 putative translocon binding site; other site 693978002548 protein-rRNA interface [nucleotide binding]; other site 693978002549 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 693978002550 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 693978002551 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 693978002552 Ribosomal protein L23; Region: Ribosomal_L23; cl00326 693978002553 Ribosomal protein L4/L1 family; Region: Ribosomal_L4; cl00325 693978002554 Ribosomal protein L3; Region: Ribosomal_L3; cl00324 693978002555 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 693978002556 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 693978002557 Low specificity phosphatase (HAD superfamily) [General function prediction only]; Region: COG1778 693978002558 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 693978002559 Maf-like protein; Region: Maf; pfam02545 693978002560 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 693978002561 active site 693978002562 dimer interface [polypeptide binding]; other site 693978002563 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 693978002564 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 693978002565 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl14000 693978002566 Phosphate-selective porin O and P; Region: Porin_O_P; cl01524 693978002567 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 693978002568 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 693978002569 hydrogenase nickel incorporation protein; Provisional; Region: hypA; cl00418 693978002570 UreD urease accessory protein; Region: UreD; cl00530 693978002571 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 693978002572 G1 box; other site 693978002573 GTP/Mg2+ binding site [chemical binding]; other site 693978002574 G2 box; other site 693978002575 Switch I region; other site 693978002576 G3 box; other site 693978002577 Switch II region; other site 693978002578 G4 box; other site 693978002579 G5 box; other site 693978002580 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 693978002581 UreF; Region: UreF; pfam01730 693978002582 UreE urease accessory protein. UreE is a metallochaperone assisting the insertion of a Ni2+ ion in the active site of urease, an important step in the in vivo assembly of urease, an enzyme that hydrolyses urea into ammonia and carbamic acid. The...; Region: UreE; cd00571 693978002583 dimer interface [polypeptide binding]; other site 693978002584 catalytic residues [active] 693978002585 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 693978002586 subunit interactions [polypeptide binding]; other site 693978002587 urease subunit alpha; Reviewed; Region: ureC; PRK13207 693978002588 active site 693978002589 flap region; other site 693978002590 Urease beta-subunit; Urease is a nickel-dependent metalloenzyme that catalyzes the hydrolysis of urea to form ammonia and carbon dioxide. Nickel-dependent ureases are found in bacteria, archaea, fungi and plants. Their primary role is to allow the use of...; Region: Urease_beta; cd00407 693978002591 gamma-beta subunit interface [polypeptide binding]; other site 693978002592 alpha-beta subunit interface [polypeptide binding]; other site 693978002593 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 693978002594 alpha-gamma subunit interface [polypeptide binding]; other site 693978002595 beta-gamma subunit interface [polypeptide binding]; other site 693978002596 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 693978002597 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 693978002598 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 693978002599 N-terminal plug; other site 693978002600 ligand-binding site [chemical binding]; other site 693978002601 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 693978002602 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 693978002603 Walker A/P-loop; other site 693978002604 ATP binding site [chemical binding]; other site 693978002605 Q-loop/lid; other site 693978002606 ABC transporter signature motif; other site 693978002607 Walker B; other site 693978002608 D-loop; other site 693978002609 H-loop/switch region; other site 693978002610 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cd06550 693978002611 ABC-ATPase subunit interface; other site 693978002612 dimer interface [polypeptide binding]; other site 693978002613 putative PBP binding regions; other site 693978002614 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 693978002615 Acetyl co-enzyme A carboxylase carboxyltransferase alpha subunit; Region: ACCA; cl15772 693978002616 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 693978002617 Class II Type A, Fructose-1,6-bisphosphate (FBP) aldolases. The enzyme catalyses the zinc-dependent, reversible aldol condensation of dihydroxyacetone phosphate with glyceraldehyde-3-phosphate to form fructose-1,6-bisphosphate. FBP aldolase is...; Region: FBP_aldolase_IIA; cd00946 693978002618 active site 693978002619 intersubunit interface [polypeptide binding]; other site 693978002620 zinc binding site [ion binding]; other site 693978002621 Na+ binding site [ion binding]; other site 693978002622 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; cl01255 693978002623 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 693978002624 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 693978002625 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 693978002626 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 693978002627 flavoprotein, HI0933 family; Region: TIGR00275 693978002628 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 693978002629 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 693978002630 ResB-like family; Region: ResB; pfam05140 693978002631 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 693978002632 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 693978002633 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 693978002634 Peptidase S8 family domain in Kp43 proteases; Region: Peptidases_S8_Kp43_protease; cd04842 693978002635 active site 693978002636 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 693978002637 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 693978002638 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 693978002639 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 693978002640 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 693978002641 Walker A/P-loop; other site 693978002642 ATP binding site [chemical binding]; other site 693978002643 Q-loop/lid; other site 693978002644 ABC transporter signature motif; other site 693978002645 Walker B; other site 693978002646 D-loop; other site 693978002647 H-loop/switch region; other site 693978002648 Protein of unknown function (DUF3276); Region: DUF3276; cl15305 693978002649 GlcNAc-PI de-N-acetylase; Region: PIG-L; cl00929 693978002650 putative PEP-CTERM system TPR-repeat lipoprotein; Region: PEP_TPR_lipo; TIGR02917 693978002651 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 693978002652 binding surface 693978002653 TPR motif; other site 693978002654 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 693978002655 Gram-negative bacterial tonB protein; Region: TonB; cl10048 693978002656 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 693978002657 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 693978002658 MotA/TolQ/ExbB proton channel family; Region: MotA_ExbB; cl00568 693978002659 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 693978002660 active site 693978002661 HIGH motif; other site 693978002662 nucleotide binding site [chemical binding]; other site 693978002663 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 693978002664 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 693978002665 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 693978002666 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 693978002667 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 693978002668 active site 693978002669 KMSKS motif; other site 693978002670 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 693978002671 tRNA binding surface [nucleotide binding]; other site 693978002672 Anticodon-binding domain of tRNA; Region: Anticodon_1; pfam08264 693978002673 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 693978002674 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 693978002675 active site 693978002676 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 693978002677 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 693978002678 protein binding site [polypeptide binding]; other site 693978002679 PDZ domain of tryspin-like serine proteases, such as DegP/HtrA, which are oligomeric proteins involved in heat-shock response, chaperone function, and apoptosis. May be responsible for substrate recognition and/or binding, as most PDZ domains bind...; Region: PDZ_serine_protease; cd00987 693978002680 protein binding site [polypeptide binding]; other site 693978002681 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 693978002682 Peptidase family U32; Region: Peptidase_U32; cl03113 693978002683 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 693978002684 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; cl00360 693978002685 seryl-tRNA synthetase; Provisional; Region: PRK05431 693978002686 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 693978002687 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme bound...; Region: SerRS_core; cd00770 693978002688 dimer interface [polypeptide binding]; other site 693978002689 active site 693978002690 motif 1; other site 693978002691 motif 2; other site 693978002692 motif 3; other site 693978002693 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 693978002694 Ligand Binding Site [chemical binding]; other site 693978002695 B3/4 domain; Region: B3_4; cl11458 693978002696 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 693978002697 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 693978002698 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 693978002699 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 693978002700 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is 'interfacial activation', the process of becoming...; Region: Lipase; cl14883 693978002701 nucleophilic elbow; other site 693978002702 catalytic triad; other site 693978002703 Salmonella virulence plasmid 65kDa B protein; Region: SpvB; pfam03534 693978002704 Family description; Region: VCBS; pfam13517 693978002705 Family description; Region: VCBS; pfam13517 693978002706 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 693978002707 RHS Repeat; Region: RHS_repeat; cl11982 693978002708 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 693978002709 Serum amyloid A protein; Region: SAA; cl02506 693978002710 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 693978002711 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 693978002712 NAD(P) binding site [chemical binding]; other site 693978002713 catalytic residues [active] 693978002714 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl09155 693978002715 pyruvate kinase; Provisional; Region: PRK05826 693978002716 active site 693978002717 domain interfaces; other site 693978002718 ribonuclease III, bacterial; Region: RNaseIII; TIGR02191 693978002719 RIBOc. Ribonuclease III C terminal domain. This group consists of eukaryotic, bacterial and archeal ribonuclease III (RNAse III) proteins. RNAse III is a double stranded RNA-specific endonuclease. Prokaryotic RNAse III is important in...; Region: RIBOc; cd00593 693978002720 dimerization interface [polypeptide binding]; other site 693978002721 active site 693978002722 metal binding site [ion binding]; metal-binding site 693978002723 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cl00054 693978002724 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 693978002725 Beta-ketoacyl-acyl carrier protein (ACP) synthase (KAS), type I and II. KASs are responsible for the elongation steps in fatty acid biosynthesis. KASIII catalyses the initial condensation and KAS I and II catalyze further elongation steps by Claisen...; Region: KAS_I_II; cd00834 693978002726 dimer interface [polypeptide binding]; other site 693978002727 active site 693978002728 Phosphopantetheine attachment site; Region: PP-binding; cl09936 693978002729 Cysteine-rich domain; Region: CCG; pfam02754 693978002730 Cysteine-rich domain; Region: CCG; pfam02754 693978002731 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 693978002732 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 693978002733 mce related protein; Region: MCE; pfam02470 693978002734 SurA N-terminal domain; Region: SurA_N_3; cl07813 693978002735 PPIC-type PPIASE domain; Region: Rotamase; cl08278 693978002736 PPIC-type PPIASE domain; Region: Rotamase; cl08278 693978002737 periplasmic folding chaperone; Provisional; Region: PRK10788 693978002738 Cupin domain; Region: Cupin_2; cl09118 693978002739 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 693978002740 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 693978002741 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 693978002742 The Sema domain, a protein interacting module, of semaphorins and plexins; Region: Sema; cl15693 693978002743 ornithine aminotransferase; Region: Orn_aminotrans; TIGR01885 693978002744 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 693978002745 inhibitor-cofactor binding pocket; inhibition site 693978002746 pyridoxal 5'-phosphate binding site [chemical binding]; other site 693978002747 catalytic residue [active] 693978002748 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 693978002749 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 693978002750 ATP-grasp domain; Region: ATP-grasp_4; cl03087 693978002751 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; cl08365 693978002752 acetyl-CoA carboxylase, biotin carboxyl carrier protein; Region: BCCP; TIGR00531 693978002753 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 693978002754 carboxyltransferase (CT) interaction site; other site 693978002755 biotinylation site [posttranslational modification]; other site 693978002756 Ribosomal L32p protein family; Region: Ribosomal_L32p; cl09115 693978002757 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 693978002758 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 693978002759 Pyridoxal phosphate biosynthetic protein PdxA; Region: PdxA; cl00873 693978002760 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 693978002761 Lumazine binding domain; Region: Lum_binding; pfam00677 693978002762 Lumazine binding domain; Region: Lum_binding; pfam00677 693978002763 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 693978002764 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 693978002765 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 693978002766 dimer interface [polypeptide binding]; other site 693978002767 phosphorylation site [posttranslational modification] 693978002768 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 693978002769 ATP binding site [chemical binding]; other site 693978002770 Mg2+ binding site [ion binding]; other site 693978002771 G-X-G motif; other site 693978002772 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 693978002773 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 693978002774 S-adenosylmethionine binding site [chemical binding]; other site 693978002775 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 693978002776 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 693978002777 Walker A/P-loop; other site 693978002778 ATP binding site [chemical binding]; other site 693978002779 Q-loop/lid; other site 693978002780 ABC transporter signature motif; other site 693978002781 Walker B; other site 693978002782 D-loop; other site 693978002783 H-loop/switch region; other site 693978002784 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 693978002785 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 693978002786 DHH family; Region: DHH; pfam01368 693978002787 DHHA1 domain; Region: DHHA1; pfam02272 693978002788 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 693978002789 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 693978002790 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 693978002791 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 693978002792 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 693978002793 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 693978002794 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 693978002795 starch binding outer membrane protein SusD; Region: SusD; cd08977 693978002796 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 693978002797 putative active site [active] 693978002798 putative metal binding site [ion binding]; other site 693978002799 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 693978002800 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 693978002801 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 693978002802 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 693978002803 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 693978002804 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 693978002805 Helix-turn-helix domains; Region: HTH; cl00088 693978002806 Amidinotransferase; Region: Amidinotransf; cl12043 693978002807 diaminopimelate decarboxylase; Region: lysA; TIGR01048 693978002808 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 693978002809 active site 693978002810 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 693978002811 substrate binding site [chemical binding]; other site 693978002812 catalytic residues [active] 693978002813 dimer interface [polypeptide binding]; other site 693978002814 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 693978002815 peptide chain release factor 1; Validated; Region: prfA; PRK00591 693978002816 RF-1 domain; Region: RF-1; cl02875 693978002817 RF-1 domain; Region: RF-1; cl02875 693978002818 OsmC-like protein; Region: OsmC; cl00767 693978002819 Transcriptional regulator; Region: Transcrip_reg; cl00361 693978002820 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 693978002821 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 693978002822 ligand binding site [chemical binding]; other site 693978002823 Small protein B (SmpB) is a component of the trans-translation system in prokaryotes for releasing stalled ribosome from damaged messenger RNAs; Region: SmpB; cd09294 693978002824 SmpB-tmRNA interface; other site 693978002825 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 693978002826 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 693978002827 Walker A/P-loop; other site 693978002828 ATP binding site [chemical binding]; other site 693978002829 Q-loop/lid; other site 693978002830 ABC transporter signature motif; other site 693978002831 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 693978002832 Walker B; other site 693978002833 D-loop; other site 693978002834 H-loop/switch region; other site 693978002835 ABC transporter; Region: ABC_tran_2; pfam12848 693978002836 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 693978002837 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 693978002838 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 693978002839 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 693978002840 Family of unknown function (DUF490); Region: DUF490; pfam04357 693978002841 Surface antigen; Region: Bac_surface_Ag; cl03097 693978002842 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 693978002843 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 693978002844 human 17-beta-hydroxysteroid dehydrogenase XI-like, classical (c) SDRs; Region: 17beta-HSDXI-like_SDR_c; cd05339 693978002845 putative NAD(P) binding site [chemical binding]; other site 693978002846 homodimer interface [polypeptide binding]; other site 693978002847 active site 693978002848 substrate binding site [chemical binding]; other site 693978002849 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 693978002850 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 693978002851 NAD(P) binding site [chemical binding]; other site 693978002852 catalytic residues [active] 693978002853 cell division protein FtsZ; Validated; Region: PRK09330 693978002854 FtsZ is a GTPase that is similar to the eukaryotic tubulins and is essential for cell division in prokaryotes. FtsZ is capable of polymerizing in a GTP-driven process into structures similar to those formed by tubulin. FtsZ forms a ring-shaped septum at...; Region: FtsZ_type1; cd02201 693978002855 nucleotide binding site [chemical binding]; other site 693978002856 SulA interaction site; other site 693978002857 cell division protein FtsA; Region: ftsA; TIGR01174 693978002858 Cell division protein FtsA; Region: FtsA; cl11496 693978002859 Cell division protein FtsA; Region: FtsA; cl11496 693978002860 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 693978002861 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 693978002862 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 693978002863 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 693978002864 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 693978002865 MurG is an N-acetylglucosaminyltransferase, the last enzyme involved in the intracellular phase of peptidoglycan biosynthesis. It transfers N-acetyl-D-glucosamine (GlcNAc) from UDP-GlcNAc to the C4 hydroxyl of a lipid-linked N-acetylmuramoyl pentapeptide...; Region: GT1_MurG; cd03785 693978002866 active site 693978002867 homodimer interface [polypeptide binding]; other site 693978002868 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 693978002869 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02472 693978002870 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 693978002871 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 693978002872 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 693978002873 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 693978002874 Phospho-N-acetylmuramoyl-pentapeptide-transferase (mraY) is an enzyme responsible for the formation of the first lipid intermediate in the synthesis of bacterial cell wall peptidoglycan. It catalyzes the formation of...; Region: GT_MraY; cd06852 693978002875 Mg++ binding site [ion binding]; other site 693978002876 putative catalytic motif [active] 693978002877 putative substrate binding site [chemical binding]; other site 693978002878 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 693978002879 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 693978002880 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 693978002881 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 693978002882 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 693978002883 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 693978002884 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 693978002885 PASTA domain of PBP2x-like proteins, second repeat. Penicillin-binding proteins (PBPs) are the major targets for beta-lactam antibiotics, like penicillins and cephalosporins. Beta-lactam antibiotics specifically inhibit transpeptidase activity by...; Region: PASTA_Pbp2x-like_2; cd06575 693978002886 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; cl16911 693978002887 Predicted S-adenosylmethionine-dependent methyltransferase involved in cell envelope biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG0275 693978002888 cell division protein MraZ; Reviewed; Region: PRK00326 693978002889 MraZ protein; Region: MraZ; pfam02381 693978002890 MraZ protein; Region: MraZ; pfam02381 693978002891 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 693978002892 Predicted GTPase [General function prediction only]; Region: COG0218 693978002893 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 693978002894 G1 box; other site 693978002895 GTP/Mg2+ binding site [chemical binding]; other site 693978002896 Switch I region; other site 693978002897 G2 box; other site 693978002898 G3 box; other site 693978002899 Switch II region; other site 693978002900 G4 box; other site 693978002901 G5 box; other site 693978002902 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 693978002903 Peptide methionine sulfoxide reductase; Region: PMSR; cl00366 693978002904 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 693978002905 Found in ATP-dependent protease La (LON); Region: LON; smart00464 693978002906 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 693978002907 Walker A motif; other site 693978002908 ATP binding site [chemical binding]; other site 693978002909 Walker B motif; other site 693978002910 arginine finger; other site 693978002911 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 693978002912 Protein of unknown function (Porph_ging); Region: Porph_ging; cl09903 693978002913 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 693978002914 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 693978002915 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 693978002916 NADP binding site [chemical binding]; other site 693978002917 active site 693978002918 putative substrate binding site [chemical binding]; other site 693978002919 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 693978002920 active site 693978002921 periplasmic chaperone; Provisional; Region: PRK10780 693978002922 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 693978002923 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 693978002924 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 693978002925 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 693978002926 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 693978002927 Surface antigen variable number repeat; Region: Surf_Ag_VNR; cl10520 693978002928 Surface antigen; Region: Bac_surface_Ag; cl03097 693978002929 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 693978002930 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 693978002931 catalytic residue [active] 693978002932 putative FPP diphosphate binding site; other site 693978002933 putative FPP binding hydrophobic cleft; other site 693978002934 dimer interface [polypeptide binding]; other site 693978002935 putative IPP diphosphate binding site; other site 693978002936 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 693978002937 Domain of unknown function (DUF389); Region: DUF389; cl00781 693978002938 Phosphatidylserine decarboxylase; Region: PS_Dcarbxylase; cl03656 693978002939 Cytidylyltransferase family; Region: CTP_transf_1; cl00347 693978002940 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; cl00674 693978002941 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 693978002942 TRAM domain; Region: TRAM; cl01282 693978002943 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 693978002944 S-adenosylmethionine binding site [chemical binding]; other site 693978002945 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 693978002946 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 693978002947 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; cl15856 693978002948 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; uncharacterized family 2; Region: EEP-2; cd09084 693978002949 putative catalytic site [active] 693978002950 putative metal binding site [ion binding]; other site 693978002951 putative phosphate binding site [ion binding]; other site 693978002952 Rhomboid family; Region: Rhomboid; cl11446 693978002953 DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair]; Region: MutL; COG0323 693978002954 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 693978002955 ATP binding site [chemical binding]; other site 693978002956 Mg2+ binding site [ion binding]; other site 693978002957 G-X-G motif; other site 693978002958 MutL_Trans: transducer domain, having a ribosomal S5 domain 2-like fold, conserved in the C-terminal domain of DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second domain of the DNA gyrase B subunit, which is...; Region: MutL_Trans; cd00782 693978002959 ATP binding site [chemical binding]; other site 693978002960 MutL C terminal dimerisation domain; Region: MutL_C; cl07336 693978002961 VPS10 domain; Region: VPS10; smart00602 693978002962 Early set domain associated with the catalytic domain of sugar utilizing enzymes at either the N or C terminus; Region: E_set; cl09101 693978002963 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 693978002964 methionine sulfoxide reductase B; Provisional; Region: PRK00222; cl15841 693978002965 SelR domain; Region: SelR; pfam01641 693978002966 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 693978002967 non-specific DNA binding site [nucleotide binding]; other site 693978002968 salt bridge; other site 693978002969 sequence-specific DNA binding site [nucleotide binding]; other site 693978002970 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 693978002971 nucleoside/Zn binding site; other site 693978002972 dimer interface [polypeptide binding]; other site 693978002973 catalytic motif [active] 693978002974 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 693978002975 E-class dimer interface [polypeptide binding]; other site 693978002976 P-class dimer interface [polypeptide binding]; other site 693978002977 active site 693978002978 Cu2+ binding site [ion binding]; other site 693978002979 Zn2+ binding site [ion binding]; other site 693978002980 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylic-acid synthase; Region: menD; TIGR00173 693978002981 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 693978002982 dimer interface [polypeptide binding]; other site 693978002983 tetramer interface [polypeptide binding]; other site 693978002984 PYR/PP interface [polypeptide binding]; other site 693978002985 TPP binding site [chemical binding]; other site 693978002986 Thiamine pyrophosphate (TPP) family, SHCHC synthase subfamily, TPP-binding module; composed of proteins similar to Escherichia coli 2-succinyl-6-hydroxyl-2,4-cyclohexadiene-1-carboxylic acid (SHCHC) synthase (also called MenD). SHCHC synthase plays a key...; Region: TPP_SHCHC_synthase; cd02009 693978002987 TPP-binding site; other site 693978002988 Peptidase S46; Region: Peptidase_S46; pfam10459 693978002989 Trypsin-like serine protease; Many of these are synthesized as inactive precursor zymogens that are cleaved during limited proteolysis to generate their active forms. Alignment contains also inactive enzymes that have substitutions of the catalytic triad...; Region: Tryp_SPc; cl00149 693978002990 Protein of unknown function (DUF3078); Region: DUF3078; pfam11276 693978002991 Phosphoglycerate kinase; Region: PGK; pfam00162 693978002992 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 693978002993 substrate binding site [chemical binding]; other site 693978002994 hinge regions; other site 693978002995 ADP binding site [chemical binding]; other site 693978002996 catalytic site [active] 693978002997 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 693978002998 Adenosine deaminase (ADA) is a monomeric zinc dependent enzyme which catalyzes the irreversible hydrolytic deamination of both adenosine, as well as desoxyadenosine, to ammonia and inosine or desoxyinosine, respectively. ADA plays an important role in...; Region: ADA; cd01320 693978002999 active site 693978003000 purine riboside binding site [chemical binding]; other site 693978003001 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 693978003002 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 693978003003 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 693978003004 starch binding outer membrane protein SusD; Region: SusD; cd08977 693978003005 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 693978003006 M28 Zn-Peptidases; Region: M28_like_4; cd08015 693978003007 metal binding site [ion binding]; metal-binding site 693978003008 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 693978003009 DDE superfamily endonuclease; Region: DDE_4; cl15789 693978003010 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 693978003011 S-adenosylmethionine binding site [chemical binding]; other site 693978003012 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 693978003013 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 693978003014 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 693978003015 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 693978003016 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 693978003017 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 693978003018 active site 693978003019 nucleophile elbow; other site 693978003020 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 693978003021 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 693978003022 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_ATP; cd00484 693978003023 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 693978003024 active site 693978003025 substrate-binding site [chemical binding]; other site 693978003026 metal-binding site [ion binding] 693978003027 ATP binding site [chemical binding]; other site 693978003028 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 693978003029 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 693978003030 Biotinyl_lipoyl_domains are present in biotin-dependent carboxylases/decarboxylases, the dihydrolipoyl acyltransferase component (E2) of 2-oxo acid dehydrogenases, and the H-protein of the glycine cleavage system (GCS). These domains transport CO2, acyl; Region: Biotinyl_lipoyl_domains; cl11404 693978003031 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 693978003032 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 693978003033 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 693978003034 The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine...; Region: phosphohexomutase; cl03757 693978003035 active site 693978003036 substrate binding site [chemical binding]; other site 693978003037 metal binding site [ion binding]; metal-binding site 693978003038 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 693978003039 binding surface 693978003040 TPR motif; other site 693978003041 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 693978003042 TPR motif; other site 693978003043 binding surface 693978003044 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 693978003045 binding surface 693978003046 TPR motif; other site 693978003047 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 693978003048 binding surface 693978003049 TPR motif; other site 693978003050 TPR repeat; Region: TPR_11; pfam13414 693978003051 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 693978003052 pheromone autoinducer 2 transporter; Reviewed; Region: tqsA; cl00465 693978003053 Domain of unknown function DUF20; Region: UPF0118; pfam01594 693978003054 chorismate binding enzyme; Region: Chorismate_bind; cl10555 693978003055 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 693978003056 substrate-cofactor binding pocket; other site 693978003057 pyridoxal 5'-phosphate binding site [chemical binding]; other site 693978003058 catalytic residue [active] 693978003059 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 693978003060 Fic family protein [Function unknown]; Region: COG3177 693978003061 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 693978003062 Fic/DOC family; Region: Fic; cl00960 693978003063 Uncharacterized conserved protein [Function unknown]; Region: COG0397; cl00428 693978003064 Uncharacterized ACR, YdiU/UPF0061 family; Region: UPF0061; pfam02696 693978003065 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 693978003066 aspartate aminotransferase; Provisional; Region: PRK07568 693978003067 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 693978003068 pyridoxal 5'-phosphate binding site [chemical binding]; other site 693978003069 homodimer interface [polypeptide binding]; other site 693978003070 catalytic residue [active] 693978003071 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 693978003072 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 693978003073 active site 693978003074 HIGH motif; other site 693978003075 nucleotide binding site [chemical binding]; other site 693978003076 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 693978003077 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 693978003078 active site 693978003079 KMSKS motif; other site 693978003080 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 693978003081 tRNA binding surface [nucleotide binding]; other site 693978003082 anticodon binding site; other site 693978003083 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 693978003084 Signal peptidase (SPase) II; Region: Peptidase_A8; cl00458 693978003085 lipoprotein signal peptidase; Provisional; Region: PRK14787 693978003086 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 693978003087 putative active site [active] 693978003088 GTP-binding protein LepA; Provisional; Region: PRK05433 693978003089 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 693978003090 G1 box; other site 693978003091 putative GEF interaction site [polypeptide binding]; other site 693978003092 GTP/Mg2+ binding site [chemical binding]; other site 693978003093 Switch I region; other site 693978003094 G2 box; other site 693978003095 G3 box; other site 693978003096 Switch II region; other site 693978003097 G4 box; other site 693978003098 G5 box; other site 693978003099 lepA_II: This subfamily represents the domain II of LepA, a GTP-binding protein localized in the cytoplasmic membrane. The N-terminal domain of LepA shares regions of homology to translation factors. In terms of interaction with the ribosome, EF-G, EF-Tu...; Region: lepA_II; cd03699 693978003100 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 693978003101 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 693978003102 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 693978003103 S23 ribosomal protein; Region: Ribosomal_S23p; cl05287 693978003104 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 693978003105 putative ABC transporter; Region: ycf24; CHL00085 693978003106 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 693978003107 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 693978003108 NlpE N-terminal domain; Region: NlpE; cl01138 693978003109 HIUase (5-hydroxyisourate hydrolase) catalyzes the second step in a three-step ureide pathway in which 5-hydroxyisourate (HIU), a product of the uricase (urate oxidase) reaction, is hydrolyzed to 2-oxo-4-hydroxy-4-carboxy-5-ureidoimidazoline (OHCU); Region: TLP_HIUase; cd05822 693978003110 active site 693978003111 homotetramer interface [polypeptide binding]; other site 693978003112 Domain of unknown function (DUF336); Region: DUF336; cl01249 693978003113 FeS assembly ATPase SufC; Region: sufC; TIGR01978 693978003114 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 693978003115 Walker A/P-loop; other site 693978003116 ATP binding site [chemical binding]; other site 693978003117 Q-loop/lid; other site 693978003118 ABC transporter signature motif; other site 693978003119 Walker B; other site 693978003120 D-loop; other site 693978003121 H-loop/switch region; other site 693978003122 Cysteine desulfurase activator SufB [Posttranslational modification, protein turnover, chaperones]; Region: SufB; COG0719 693978003123 Uncharacterized protein family (UPF0051); Region: UPF0051; cl03223 693978003124 Type III pantothenate kinase; Region: Pan_kinase; cl09130 693978003125 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 693978003126 Zn binding site [ion binding]; other site 693978003127 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 693978003128 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 693978003129 active site 693978003130 phosphorylation site [posttranslational modification] 693978003131 intermolecular recognition site; other site 693978003132 dimerization interface [polypeptide binding]; other site 693978003133 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 693978003134 DNA binding site [nucleotide binding] 693978003135 Domain of unknown function (DUF4290); Region: DUF4290; pfam14123 693978003136 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 693978003137 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 693978003138 hinge; other site 693978003139 active site 693978003140 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 693978003141 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 693978003142 Peroxiredoxin (PRX)-like 1 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a conserved cysteine that aligns to the first cysteine in the CXXC motif of TRX. This does not correspond to the peroxidatic...; Region: PRX_like1; cd02969 693978003143 putative catalytic residue [active] 693978003144 Ribosomal L27 protein; Region: Ribosomal_L27; cl00359 693978003145 Ribosomal prokaryotic L21 protein; Region: Ribosomal_L21p; cl00382 693978003146 Uncharacterized conserved protein [Function unknown]; Region: COG3743 693978003147 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 693978003148 FAD binding domain; Region: FAD_binding_4; pfam01565 693978003149 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 693978003150 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 693978003151 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 693978003152 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 693978003153 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 693978003154 ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]; Region: SunT; COG2274 693978003155 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 693978003156 Walker A/P-loop; other site 693978003157 ATP binding site [chemical binding]; other site 693978003158 Q-loop/lid; other site 693978003159 ABC transporter signature motif; other site 693978003160 Walker B; other site 693978003161 D-loop; other site 693978003162 H-loop/switch region; other site 693978003163 putative bifunctional UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase/alanine racemase; Provisional; Region: PRK11930 693978003164 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 693978003165 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 693978003166 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 693978003167 active site 693978003168 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 693978003169 dimer interface [polypeptide binding]; other site 693978003170 substrate binding site [chemical binding]; other site 693978003171 catalytic residues [active] 693978003172 thymidine kinase; Provisional; Region: PRK04296 693978003173 Precorrin-3B methylase [Coenzyme metabolism]; Region: CobJ; cl00304 693978003174 Tetrapyrrole (Corrin/Porphyrin) Methylases; Region: TP_methylase; pfam00590 693978003175 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 693978003176 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 693978003177 NAD(P) binding site [chemical binding]; other site 693978003178 homotetramer interface [polypeptide binding]; other site 693978003179 homodimer interface [polypeptide binding]; other site 693978003180 active site 693978003181 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 693978003182 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 693978003183 DNA binding residues [nucleotide binding] 693978003184 dimerization interface [polypeptide binding]; other site 693978003185 ribonuclease R; Region: RNase_R; TIGR02063 693978003186 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 693978003187 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 693978003188 RNB domain; Region: RNB; pfam00773 693978003189 S1_RNase_R: RNase R C-terminal S1 domain. RNase R is a processive 3' to 5' exoribonuclease, which is a homolog of RNase II. RNase R degrades RNA with secondary structure having a 3' overhang of at least 7 nucleotides. RNase R and PNPase play an important...; Region: S1_RNase_R; cd04471 693978003190 RNA binding site [nucleotide binding]; other site 693978003191 Ribose/Galactose Isomerase; Region: LacAB_rpiB; cl00485 693978003192 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 693978003193 Clp protease ATP binding subunit; Region: clpC; CHL00095 693978003194 Clp amino terminal domain; Region: Clp_N; pfam02861 693978003195 Clp amino terminal domain; Region: Clp_N; pfam02861 693978003196 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 693978003197 Walker A motif; other site 693978003198 ATP binding site [chemical binding]; other site 693978003199 Walker B motif; other site 693978003200 arginine finger; other site 693978003201 UvrB/uvrC motif; Region: UVR; pfam02151 693978003202 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 693978003203 Walker A motif; other site 693978003204 ATP binding site [chemical binding]; other site 693978003205 Walker B motif; other site 693978003206 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; cl11083 693978003207 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 693978003208 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; cl11611 693978003209 Fe-S metabolism associated domain; Region: SufE; cl00951 693978003210 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 693978003211 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 693978003212 putative active site [active] 693978003213 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 693978003214 active site 693978003215 Predicted glycosyltransferase involved in capsule biosynthesis [Cell envelope biogenesis, outer membrane]; Region: COG4092 693978003216 Survival protein SurE; Region: SurE; cl00448 693978003217 C-terminal peptidase (prc); Region: prc; TIGR00225 693978003218 PDZ domain of C-terminal processing-, tail-specific-, and tricorn proteases, which function in posttranslational protein processing, maturation, and disassembly or degradation, in Bacteria, Archaea, and plant chloroplasts. May be responsible for...; Region: PDZ_CTP_protease; cd00988 693978003219 protein binding site [polypeptide binding]; other site 693978003220 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 693978003221 Catalytic dyad [active] 693978003222 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 693978003223 Mechanosensitive ion channel; Region: MS_channel; pfam00924 693978003224 Protein of unknown function (Porph_ging); Region: Porph_ging; cl09903 693978003225 Protein of unknown function, DUF393; Region: DUF393; cl01136 693978003226 Haem-binding domain; Region: Haem_bd; pfam14376 693978003227 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 693978003228 active site 693978003229 trimer interface [polypeptide binding]; other site 693978003230 dimer interface [polypeptide binding]; other site 693978003231 PSP1 C-terminal conserved region; Region: PSP1; cl00770 693978003232 GldH lipoprotein; Region: GldH_lipo; cl11905 693978003233 Transglycosylase; Region: Transgly; cl07896 693978003234 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 693978003235 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 693978003236 ATP binding site [chemical binding]; other site 693978003237 substrate interface [chemical binding]; other site 693978003238 C-terminal DNA-binding domain of LuxR-like proteins. This domain contains a helix-turn-helix motif and binds DNA. Proteins belonging to this group are response regulators; some act as transcriptional activators, others as transcriptional repressors. Many...; Region: LuxR_C_like; cd06170 693978003239 DNA binding residues [nucleotide binding] 693978003240 dimerization interface [polypeptide binding]; other site 693978003241 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 693978003242 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 693978003243 Protein of unknown function (Porph_ging); Region: Porph_ging; cl09903 693978003244 Sporulation related domain; Region: SPOR; cl10051 693978003245 Cytochrome c; Region: Cytochrom_C; cl11414 693978003246 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 693978003247 heme-binding residues [chemical binding]; other site 693978003248 Molybdopterin-Binding (MopB) domain of the MopB superfamily of proteins, a large, diverse, heterogeneous superfamily of enzymes that, in general, bind molybdopterin as a cofactor. The MopB domain is found in a wide variety of molybdenum- and...; Region: Molybdopterin-Binding; cl09928 693978003249 molybdopterin cofactor binding site; other site 693978003250 The MopB_CT_PHLH CD includes a group of related uncharacterized putative hydrogenase-like homologs (PHLH) of molybdopterin binding proteins. This CD is of the PHLH region homologous to the conserved molybdopterin-binding C-terminal (MopB_CT) region...; Region: MopB_CT_PHLH; cd02784 693978003251 Fe-S-cluster-containing hydrogenase components 1 [Energy production and conversion]; Region: HybA; COG0437 693978003252 Polysulphide reductase, NrfD; Region: NrfD; cl01295 693978003253 Formate-dependent nitrite reductase, membrane component [Inorganic ion transport and metabolism]; Region: NrfD; COG3301 693978003254 Protein of unknown function (DUF3341); Region: DUF3341; pfam11821 693978003255 Cytochrome c; Region: Cytochrom_C; cl11414 693978003256 NTF2-like N-terminal transpeptidase domain; Region: MecA_N; pfam05223 693978003257 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 693978003258 active site 693978003259 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 693978003260 lumazine synthase (6,7-dimethyl-8-ribityllumazine synthase, LS), catalyzes the penultimate step in the biosynthesis of riboflavin (vitamin B2); type-I; Region: Lumazine_synthase-I; cd09209 693978003261 homopentamer interface [polypeptide binding]; other site 693978003262 active site 693978003263 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; cl00988 693978003264 Acyltransferase family; Region: Acyl_transf_3; pfam01757 693978003265 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 693978003266 active site 693978003267 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 693978003268 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 693978003269 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 693978003270 Ribosomal L28 family; Region: Ribosomal_L28; cl00367 693978003271 Ribosomal protein L33; Region: Ribosomal_L33; cl00383 693978003272 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 693978003273 SRP54-type protein, helical bundle domain; Region: SRP54_N; cl03758 693978003274 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 693978003275 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 693978003276 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 693978003277 TOPRIM_TopoIA_TopoI: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to Escherichia coli DNA topoisomerase I. Type IA DNA topoisomerases remove (relax) negative supercoils in the...; Region: TOPRIM_TopoIA_TopoI; cd03363 693978003278 active site 693978003279 interdomain interaction site; other site 693978003280 putative metal-binding site [ion binding]; other site 693978003281 nucleotide binding site [chemical binding]; other site 693978003282 DNA Topoisomerase, subtype IA; DNA-binding, ATP-binding and catalytic domain of bacterial DNA topoisomerases I and III, and eukaryotic DNA topoisomerase III and eubacterial and archael reverse gyrases. Topoisomerases clevage single or double stranded DNA...; Region: TOP1Ac; cd00186 693978003283 domain I; other site 693978003284 DNA binding groove [nucleotide binding] 693978003285 phosphate binding site [ion binding]; other site 693978003286 domain II; other site 693978003287 domain III; other site 693978003288 nucleotide binding site [chemical binding]; other site 693978003289 catalytic site [active] 693978003290 domain IV; other site 693978003291 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 693978003292 Arginase family; Region: Arginase; cl00306 693978003293 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 693978003294 active site 693978003295 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 693978003296 Mg++ binding site [ion binding]; other site 693978003297 putative catalytic motif [active] 693978003298 substrate binding site [chemical binding]; other site 693978003299 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 693978003300 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 693978003301 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 693978003302 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 693978003303 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 693978003304 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 693978003305 MutS domain I; Region: MutS_I; pfam01624 693978003306 MutS domain II; Region: MutS_II; pfam05188 693978003307 MutS family domain IV; Region: MutS_IV; pfam05190 693978003308 MutS1 homolog in eukaryotes. The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal...; Region: ABC_MutS1; cd03284 693978003309 Walker A/P-loop; other site 693978003310 ATP binding site [chemical binding]; other site 693978003311 Q-loop/lid; other site 693978003312 ABC transporter signature motif; other site 693978003313 Walker B; other site 693978003314 D-loop; other site 693978003315 H-loop/switch region; other site 693978003316 OpgC protein; Region: OpgC_C; cl00792 693978003317 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 693978003318 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 693978003319 Ligand binding site; other site 693978003320 Putative Catalytic site; other site 693978003321 DXD motif; other site 693978003322 Domain of unknown function (DUF4296); Region: DUF4296; pfam14129 693978003323 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; cl00409 693978003324 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 693978003325 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 693978003326 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 693978003327 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 693978003328 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 693978003329 Oligomerisation domain; Region: Oligomerisation; cl00519 693978003330 FtsH Extracellular; Region: FtsH_ext; pfam06480 693978003331 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 693978003332 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 693978003333 Walker A motif; other site 693978003334 ATP binding site [chemical binding]; other site 693978003335 Walker B motif; other site 693978003336 arginine finger; other site 693978003337 Peptidase family M41; Region: Peptidase_M41; pfam01434 693978003338 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 693978003339 non-specific DNA binding site [nucleotide binding]; other site 693978003340 salt bridge; other site 693978003341 sequence-specific DNA binding site [nucleotide binding]; other site 693978003342 Predicted helicase [General function prediction only]; Region: COG4889 693978003343 Domain of unknown function, B. Theta Gene description (DUF3871); Region: DUF3871; pfam12987 693978003344 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 693978003345 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 693978003346 ATP binding site [chemical binding]; other site 693978003347 putative Mg++ binding site [ion binding]; other site 693978003348 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 693978003349 active site 693978003350 DNA binding site [nucleotide binding] 693978003351 Int/Topo IB signature motif; other site 693978003352 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 693978003353 RIP metalloprotease RseP; Region: TIGR00054 693978003354 active site 693978003355 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 693978003356 PDZ domain of bacterial and plant zinc metalloprotases, presumably membrane-associated or integral membrane proteases, which may be involved in signalling and regulatory mechanisms. May be responsible for substrate recognition and/or binding, as most PDZ...; Region: PDZ_metalloprotease; cd00989 693978003357 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 693978003358 putative substrate binding region [chemical binding]; other site 693978003359 Predicted amidohydrolase [General function prediction only]; Region: COG0388 693978003360 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 693978003361 putative active site [active] 693978003362 catalytic triad [active] 693978003363 dimer interface [polypeptide binding]; other site 693978003364 multimer interface [polypeptide binding]; other site 693978003365 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 693978003366 ATP-grasp domain; Region: ATP-grasp_4; cl03087 693978003367 excinuclease ABC subunit B; Provisional; Region: PRK05298 693978003368 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 693978003369 ATP binding site [chemical binding]; other site 693978003370 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 693978003371 nucleotide binding region [chemical binding]; other site 693978003372 ATP-binding site [chemical binding]; other site 693978003373 Ultra-violet resistance protein B; Region: UvrB; pfam12344 693978003374 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cl00047 693978003375 DinB superfamily; Region: DinB_2; pfam12867 693978003376 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 693978003377 SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely...; Region: SGNH_hydrolase; cl01053 693978003378 catalytic triad [active] 693978003379 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 693978003380 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 693978003381 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 693978003382 active site 693978003383 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 693978003384 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 693978003385 5S rRNA interface [nucleotide binding]; other site 693978003386 CTC domain interface [polypeptide binding]; other site 693978003387 L16 interface [polypeptide binding]; other site 693978003388 SprT-like family; Region: SprT-like; pfam10263 693978003389 SprT homologues; Region: SprT; cl01182 693978003390 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 693978003391 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 693978003392 Substrate binding site; other site 693978003393 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 693978003394 Subunit ChlI of Mg-chelatase; Region: ChlI; cl12214 693978003395 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 693978003396 Walker A motif; other site 693978003397 ATP binding site [chemical binding]; other site 693978003398 Walker B motif; other site 693978003399 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 693978003400 Protein of unknown function (Porph_ging); Region: Porph_ging; cl09903 693978003401 RNA polymerase sigma factor; Provisional; Region: PRK12513 693978003402 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 693978003403 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 693978003404 DNA binding residues [nucleotide binding] 693978003405 HAD superfamily (subfamily IA) hydrolase, TIGR02254; Region: YjjG/YfnB 693978003406 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 693978003407 motif II; other site 693978003408 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 693978003409 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 693978003410 active site 693978003411 HIGH motif; other site 693978003412 dimer interface [polypeptide binding]; other site 693978003413 KMSKS motif; other site 693978003414 LysE type translocator; Region: LysE; cl00565 693978003415 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 693978003416 dimer interface [polypeptide binding]; other site 693978003417 catalytic triad [active] 693978003418 Restriction endonuclease; Region: Mrr_cat; cl00516 693978003419 Putative regulator of cell autolysis [Signal transduction mechanisms]; Region: LytS; COG3275 693978003420 Histidine kinase; Region: His_kinase; pfam06580 693978003421 two-component response regulator; Provisional; Region: PRK14084 693978003422 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 693978003423 active site 693978003424 phosphorylation site [posttranslational modification] 693978003425 intermolecular recognition site; other site 693978003426 dimerization interface [polypeptide binding]; other site 693978003427 LytTr DNA-binding domain; Region: LytTR; cl04498 693978003428 Tic20-like protein; Region: Tic20; pfam09685 693978003429 NlpC/P60 family; Region: NLPC_P60; cl11438 693978003430 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 693978003431 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 693978003432 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 693978003433 Protein of unknown function (DUF3078); Region: DUF3078; pfam11276 693978003434 Rhomboid family; Region: Rhomboid; cl11446 693978003435 Domain of unknown function (DUF1905); Region: DUF1905; pfam08922 693978003436 A new structural DNA glycosylase; Region: AlkD_like; cl11434 693978003437 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 693978003438 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 transport...; Region: FNR_like; cl06868 693978003439 FAD binding pocket [chemical binding]; other site 693978003440 conserved FAD binding motif [chemical binding]; other site 693978003441 phosphate binding motif [ion binding]; other site 693978003442 beta-alpha-beta structure motif; other site 693978003443 NAD binding pocket [chemical binding]; other site 693978003444 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 693978003445 A new structural DNA glycosylase; Region: AlkD_like; cd06561 693978003446 active site 693978003447 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 693978003448 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 693978003449 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 693978003450 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 693978003451 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 693978003452 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 693978003453 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 693978003454 NAD(P)H:FMN oxidoreductase family. This domain catalyzes the reduction of flavin, nitrocompound, quinones and azo compounds using NADH or NADPH as an electron donor. The enzyme is a homodimer, and each monomer binds a FMN as co-factor. This family...; Region: NfsB_like_nitroreductase; cd02149 693978003455 dimer interface [polypeptide binding]; other site 693978003456 FMN binding site [chemical binding]; other site 693978003457 Surface antigen; Region: Bac_surface_Ag; cl03097 693978003458 NUMOD4 motif; Region: NUMOD4; pfam07463 693978003459 HNH endonuclease; Region: HNH_3; pfam13392 693978003460 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 693978003461 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 693978003462 HflX GTPase family; Region: HflX; cd01878 693978003463 G1 box; other site 693978003464 GTP/Mg2+ binding site [chemical binding]; other site 693978003465 Switch I region; other site 693978003466 G2 box; other site 693978003467 G3 box; other site 693978003468 Switch II region; other site 693978003469 G4 box; other site 693978003470 G5 box; other site 693978003471 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 693978003472 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 693978003473 FeoA domain; Region: FeoA; cl00838 693978003474 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 693978003475 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 693978003476 G1 box; other site 693978003477 GTP/Mg2+ binding site [chemical binding]; other site 693978003478 Switch I region; other site 693978003479 G2 box; other site 693978003480 G3 box; other site 693978003481 Switch II region; other site 693978003482 G4 box; other site 693978003483 G5 box; other site 693978003484 Nucleoside recognition; Region: Gate; cl00486 693978003485 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 693978003486 Nucleoside recognition; Region: Gate; cl00486 693978003487 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 693978003488 Domain of unknown function (DUF3127); Region: DUF3127; pfam11325 693978003489 C-terminal processing peptidase family S41; Region: Peptidase_S41; cd06567 693978003490 Active site serine [active] 693978003491 folylpolyglutamate synthase/dihydrofolate synthase; Region: folC; TIGR01499 693978003492 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 693978003493 The eukaryotic Sm and Sm-like (LSm) proteins associate with RNA to form the core domain of the ribonucleoprotein particles involved in a variety of RNA processing events including pre-mRNA splicing, telomere replication, and mRNA degradation. Members of...; Region: Sm_like; cl00259 693978003494 Uncharacterized BCR, YhbC family COG0779; Region: DUF150; pfam02576 693978003495 transcription termination factor NusA; Region: NusA; TIGR01953 693978003496 NusA N-terminal domain; Region: NusA_N; pfam08529 693978003497 S1_NusA: N-utilizing substance A protein (NusA), S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. NusA is a transcription elongation factor containing an N-terminal catalytic domain and three...; Region: S1_NusA; cd04455 693978003498 RNA binding site [nucleotide binding]; other site 693978003499 homodimer interface [polypeptide binding]; other site 693978003500 KH-II (K homology RNA-binding domain, type II). KH binds single-stranded RNA or DNA. It is found in a wide variety of proteins including ribosomal proteins (e.g. ribosomal protein S3), transcription factors (e.g. NusA_K), and post-transcriptional...; Region: KH-II; cl00098 693978003501 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 693978003502 G-X-X-G motif; other site 693978003503 translation initiation factor IF-2; Region: IF-2; TIGR00487 693978003504 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 693978003505 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 693978003506 G1 box; other site 693978003507 putative GEF interaction site [polypeptide binding]; other site 693978003508 GTP/Mg2+ binding site [chemical binding]; other site 693978003509 Switch I region; other site 693978003510 G2 box; other site 693978003511 G3 box; other site 693978003512 Switch II region; other site 693978003513 G4 box; other site 693978003514 G5 box; other site 693978003515 This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell; Region: IF2_mtIF2_II; cd03702 693978003516 Translation-initiation factor 2; Region: IF-2; pfam11987 693978003517 mtIF2_IVc: this family represents the C2 subdomain of domain IV of mitochondrial translation initiation factor 2 (mtIF2) which adopts a beta-barrel fold displaying a high degree of structural similarity with domain II of the translation elongation factor...; Region: mtIF2_IVc; cd03692 693978003518 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 693978003519 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 693978003520 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 693978003521 starch binding outer membrane protein SusD; Region: SusD; cd08977 693978003522 Domain of unknown function (DUF4289); Region: DUF4289; pfam14121 693978003523 Uncharacterized protein conserved in bacteria (DUF2317); Region: DUF2317; pfam10079 693978003524 autolysin; Reviewed; Region: PRK06347 693978003525 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 693978003526 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 693978003527 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 693978003528 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 693978003529 ligand binding site [chemical binding]; other site 693978003530 Acyl transferase domain; Region: Acyl_transf_1; cl08282 693978003531 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 693978003532 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 693978003533 catalytic residues [active] 693978003534 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 693978003535 active site residue [active] 693978003536 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 693978003537 active site residue [active] 693978003538 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 693978003539 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 693978003540 active site residue [active] 693978003541 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 693978003542 active site residue [active] 693978003543 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 693978003544 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 693978003545 exonuclease, DNA polymerase III, epsilon subunit family; Region: dnaq; TIGR00573 693978003546 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 693978003547 active site 693978003548 catalytic site [active] 693978003549 substrate binding site [chemical binding]; other site 693978003550 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 693978003551 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 693978003552 Walker A/P-loop; other site 693978003553 ATP binding site [chemical binding]; other site 693978003554 Q-loop/lid; other site 693978003555 RecN ATPase involved in DNA repair; ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and...; Region: ABC_RecN; cd03241 693978003556 Q-loop/lid; other site 693978003557 ABC transporter signature motif; other site 693978003558 Walker B; other site 693978003559 D-loop; other site 693978003560 H-loop/switch region; other site 693978003561 Protein of unknown function (Porph_ging); Region: Porph_ging; cl09903 693978003562 Protein of unknown function (DUF502); Region: DUF502; cl01107 693978003563 biotin synthase; Region: bioB; TIGR00433 693978003564 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 693978003565 FeS/SAM binding site; other site 693978003566 Biotin and Thiamin Synthesis associated domain; Region: BATS; cl06149 693978003567 Protein of unknown function (Porph_ging); Region: Porph_ging; cl09903 693978003568 thiamine-monophosphate kinase; Region: thiL; TIGR01379 693978003569 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 693978003570 ATP binding site [chemical binding]; other site 693978003571 dimerization interface [polypeptide binding]; other site 693978003572 4-hydroxybenzoyl-CoA thioesterase (4HBT). Catalyzes the final step in the 4-chlorobenzoate degradation pathway in which 4-chlorobenzoate is converted to 4-hydroxybenzoate in certain soil-dwelling bacteria. 4HBT forms a homotetramer with four active sites; Region: 4HBT; cd00586 693978003573 active site 693978003574 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 693978003575 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 693978003576 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14329 693978003577 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 693978003578 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 693978003579 FeS/SAM binding site; other site 693978003580 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 693978003581 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 693978003582 Walker A motif; other site 693978003583 ATP binding site [chemical binding]; other site 693978003584 Walker B motif; other site 693978003585 arginine finger; other site 693978003586 Helix-turn-helix domains; Region: HTH; cl00088 693978003587 Ribonuclease P; Region: Ribonuclease_P; cl00457 693978003588 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 693978003589 Family of activating enzymes (E1) of ubiquitin-like proteins related to the E.coli hypothetical protein ygdL. The common reaction mechanism catalyzed by E1-like enzymes begins with a nucleophilic attack of the C-terminal carboxylate of the ubiquitin-like...; Region: YgdL_like; cd00755 693978003590 putative ATP binding site [chemical binding]; other site 693978003591 putative substrate interface [chemical binding]; other site 693978003592 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 693978003593 active site 693978003594 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 693978003595 Helix-turn-helix domains; Region: HTH; cl00088 693978003596 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 693978003597 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 693978003598 Substrate binding site; other site 693978003599 metal-binding site 693978003600 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 693978003601 Flavoprotein; Region: Flavoprotein; cl08021 693978003602 DNA / pantothenate metabolism flavoprotein; Region: DFP; cl04410 693978003603 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 693978003604 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 693978003605 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 693978003606 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 693978003607 NAD(P) binding site [chemical binding]; other site 693978003608 active site 693978003609 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 693978003610 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12901 693978003611 SecA preprotein cross-linking domain; Region: SecA_PP_bind; cl03078 693978003612 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 693978003613 nucleotide binding region [chemical binding]; other site 693978003614 ATP-binding site [chemical binding]; other site 693978003615 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 693978003616 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 693978003617 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 693978003618 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 693978003619 GTP-binding protein Der; Reviewed; Region: PRK00093 693978003620 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 693978003621 G1 box; other site 693978003622 GTP/Mg2+ binding site [chemical binding]; other site 693978003623 Switch I region; other site 693978003624 G2 box; other site 693978003625 Switch II region; other site 693978003626 G3 box; other site 693978003627 G4 box; other site 693978003628 G5 box; other site 693978003629 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 693978003630 G1 box; other site 693978003631 GTP/Mg2+ binding site [chemical binding]; other site 693978003632 Switch I region; other site 693978003633 G2 box; other site 693978003634 G3 box; other site 693978003635 Switch II region; other site 693978003636 G4 box; other site 693978003637 G5 box; other site 693978003638 potential frameshift: common BLAST hit: gi|313206834|ref|YP_004046011.1| cell shape determining protein, mreb/mrl family 693978003639 rod shape-determining protein MreB; Provisional; Region: PRK13927 693978003640 Cell division protein FtsA; Region: FtsA; cl11496 693978003641 rod shape-determining protein MreC; Provisional; Region: PRK13922 693978003642 rod shape-determining protein MreC; Region: MreC; pfam04085 693978003643 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 693978003644 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 693978003645 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 693978003646 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 693978003647 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 693978003648 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 693978003649 ligand binding site [chemical binding]; other site 693978003650 O-methyltransferase; Region: Methyltransf_3; pfam01596 693978003651 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 693978003652 S-adenosylmethionine binding site [chemical binding]; other site 693978003653 Bacterial SH3 domain; Region: SH3_3; cl02551 693978003654 NlpC/P60 family; Region: NLPC_P60; cl11438 693978003655 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 693978003656 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 693978003657 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 693978003658 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 693978003659 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 693978003660 N-terminal plug; other site 693978003661 ligand-binding site [chemical binding]; other site 693978003662 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 693978003663 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 693978003664 Disulphide isomerase; Region: Disulph_isomer; cl05813 693978003665 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 693978003666 Uroporphyrinogen decarboxylase (URO-D) is a dimeric cytosolic enzyme that decarboxylates the four acetate side chains of uroporphyrinogen III (uro-III) to create coproporphyrinogen III, without requiring any prosthetic groups or cofactors. This reaction...; Region: URO-D; cd00717 693978003667 substrate binding site [chemical binding]; other site 693978003668 active site 693978003669 Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in...; Region: HemD; cd06578 693978003670 Uroporphyrinogen-III synthase HemD; Region: HEM4; pfam02602 693978003671 active site 693978003672 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 693978003673 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 693978003674 domain interfaces; other site 693978003675 active site 693978003676 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 693978003677 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 693978003678 tRNA; other site 693978003679 putative tRNA binding site [nucleotide binding]; other site 693978003680 putative NADP binding site [chemical binding]; other site 693978003681 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 693978003682 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 693978003683 ligand binding site [chemical binding]; other site 693978003684 flexible hinge region; other site 693978003685 Protein of unknown function (Porph_ging); Region: Porph_ging; cl09903 693978003686 Domain of unknown function (DUF4407); Region: DUF4407; pfam14362 693978003687 Phosphate transporter family; Region: PHO4; cl00396 693978003688 Phosphate transporter family; Region: PHO4; cl00396 693978003689 fumarate hydratase; Provisional; Region: PRK15389 693978003690 Fumarate hydratase (Fumerase); Region: Fumerase; cl00851 693978003691 Fumarase C-terminus; Region: Fumerase_C; cl00795 693978003692 peptidase T; Region: peptidase-T; TIGR01882 693978003693 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 693978003694 metal binding site [ion binding]; metal-binding site 693978003695 dimer interface [polypeptide binding]; other site 693978003696 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 693978003697 active site 693978003698 catalytic residues [active] 693978003699 metal binding site [ion binding]; metal-binding site 693978003700 glycyl-tRNA synthetase; Provisional; Region: PRK04173 693978003701 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches...; Region: class_II_aaRS-like_core; cl00268 693978003702 motif 1; other site 693978003703 Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3'...; Region: GlyRS-like_core; cd00774 693978003704 active site 693978003705 motif 2; other site 693978003706 motif 3; other site 693978003707 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 693978003708 anticodon binding site; other site 693978003709 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 693978003710 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 693978003711 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 693978003712 catalytic residue [active] 693978003713 Flagellin N-methylase; Region: FliB; cl00497 693978003714 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 693978003715 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 693978003716 dimer interface [polypeptide binding]; other site 693978003717 active site 693978003718 heme binding site [chemical binding]; other site 693978003719 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 693978003720 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 693978003721 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 693978003722 Coenzyme A binding pocket [chemical binding]; other site 693978003723 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 693978003724 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 693978003725 RmuC family; Region: RmuC; pfam02646 693978003726 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 693978003727 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 693978003728 active site 693978003729 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 693978003730 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 693978003731 dimerization interface [polypeptide binding]; other site 693978003732 DPS ferroxidase diiron center [ion binding]; other site 693978003733 ion pore; other site 693978003734 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 693978003735 S17 interaction site [polypeptide binding]; other site 693978003736 S8 interaction site; other site 693978003737 16S rRNA interaction site [nucleotide binding]; other site 693978003738 streptomycin interaction site [chemical binding]; other site 693978003739 23S rRNA interaction site [nucleotide binding]; other site 693978003740 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 693978003741 Ribosomal protein S7p/S5e; Region: Ribosomal_S7; cl00313 693978003742 elongation factor G; Reviewed; Region: PRK12739 693978003743 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 693978003744 G1 box; other site 693978003745 putative GEF interaction site [polypeptide binding]; other site 693978003746 GTP/Mg2+ binding site [chemical binding]; other site 693978003747 Switch I region; other site 693978003748 G2 box; other site 693978003749 G3 box; other site 693978003750 Switch II region; other site 693978003751 G4 box; other site 693978003752 G5 box; other site 693978003753 EFG_mtEFG_II: this subfamily represents the domain II of elongation factor G (EF-G) in bacteria and, the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2)_like proteins found in eukaryotes. During the process of peptide synthesis...; Region: EFG_mtEFG_II; cd04088 693978003754 EFG_mtEFG1_IV: domains similar to domain IV of the bacterial translational elongation factor (EF) EF-G. Included in this group is a domain of mitochondrial Elongation factor G1 (mtEFG1) proteins homologous to domain IV of EF-G. Eukaryotic cells harbor 2...; Region: EFG_mtEFG1_IV; cd01434 693978003755 EFG_mtEFG_C: domains similar to the C-terminal domain of the bacterial translational elongation factor (EF) EF-G. Included in this group is the C-terminus of mitochondrial Elongation factor G1 (mtEFG1) and G2 (mtEFG2) proteins. Eukaryotic cells harbor 2...; Region: EFG_mtEFG_C; cd03713 693978003756 Ribosomal protein S10p/S20e; Region: Ribosomal_S10; cl00314 693978003757 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 693978003758 Protein of unknown function (Porph_ging); Region: Porph_ging; cl09903 693978003759 Protein of unknown function (Porph_ging); Region: Porph_ging; cl09903 693978003760 Protein of unknown function (Porph_ging); Region: Porph_ging; cl09903 693978003761 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 693978003762 NAD(P) binding site [chemical binding]; other site 693978003763 active site 693978003764 ferrochelatase; Reviewed; Region: hemH; PRK00035 693978003765 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 693978003766 C-terminal domain interface [polypeptide binding]; other site 693978003767 active site 693978003768 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 693978003769 active site 693978003770 N-terminal domain interface [polypeptide binding]; other site 693978003771 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; cl07364 693978003772 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; cl07364 693978003773 NifU-like domain; Region: NifU; cl00484 693978003774 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 693978003775 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 693978003776 trimer interface [polypeptide binding]; other site 693978003777 putative metal binding site [ion binding]; other site 693978003778 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 693978003779 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 693978003780 AAA domain; Region: AAA_22; pfam13401 693978003781 Family description; Region: UvrD_C_2; cl15862 693978003782 Phosphotransferase enzyme family; Region: APH; pfam01636 693978003783 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 693978003784 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 693978003785 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 693978003786 putative active site [active] 693978003787 catalytic triad [active] 693978003788 putative dimer interface [polypeptide binding]; other site 693978003789 VanZ like family; Region: VanZ; cl01971 693978003790 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 693978003791 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 693978003792 GIY-YIG motif/motif A; other site 693978003793 active site 693978003794 catalytic site [active] 693978003795 putative DNA binding site [nucleotide binding]; other site 693978003796 metal binding site [ion binding]; metal-binding site 693978003797 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 693978003798 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 693978003799 Cation efflux family; Region: Cation_efflux; cl00316 693978003800 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 693978003801 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 693978003802 CoA-binding site [chemical binding]; other site 693978003803 ATP-binding [chemical binding]; other site 693978003804 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 693978003805 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 693978003806 The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold. The ASCE division also includes ABC; Region: AAA; cd00009 693978003807 Walker A motif; other site 693978003808 ATP binding site [chemical binding]; other site 693978003809 Walker B motif; other site 693978003810 arginine finger; other site 693978003811 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 693978003812 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 693978003813 Ferritin-like domain; Region: Ferritin; pfam00210 693978003814 ferroxidase diiron center [ion binding]; other site 693978003815 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 693978003816 nudix motif; other site 693978003817 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 693978003818 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 693978003819 active site 693978003820 Int/Topo IB signature motif; other site 693978003821 Deoxycytidylate deaminase domain. Deoxycytidylate deaminase catalyzes the deamination of dCMP to dUMP, providing the nucleotide substrate for thymidylate synthase. The enzyme binds Zn++, which is required for catalytic activity. The activity of the...; Region: deoxycytidylate_deaminase; cd01286 693978003822 catalytic motif [active] 693978003823 Zn binding site [ion binding]; other site 693978003824 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 693978003825 enoyl-CoA hydratase; Provisional; Region: PRK07658 693978003826 substrate binding site [chemical binding]; other site 693978003827 oxyanion hole (OAH) forming residues; other site 693978003828 trimer interface [polypeptide binding]; other site 693978003829 Aldo-keto reductases (AKRs) are a superfamily of soluble NAD(P)(H) oxidoreductases whose chief purpose is to reduce aldehydes and ketones to primary and secondary alcohols. AKRs are present in all phyla and are of importance to both health and industrial...; Region: Aldo_ket_red; cd06660 693978003830 active site 693978003831 catalytic tetrad [active] 693978003832 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 693978003833 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 693978003834 tetramer interface [polypeptide binding]; other site 693978003835 heme binding pocket [chemical binding]; other site 693978003836 NADPH binding site [chemical binding]; other site 693978003837 Transcriptional regulator [Transcription]; Region: LysR; COG0583 693978003838 Helix-turn-helix domains; Region: HTH; cl00088 693978003839 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 693978003840 dimerization interface [polypeptide binding]; other site 693978003841 S-adenosylmethionine synthetase; Validated; Region: PRK05250 693978003842 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 693978003843 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 693978003844 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 693978003845 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 693978003846 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 693978003847 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 693978003848 RNA binding domain of NusB (N protein-Utilization Substance B) and Sun (also known as RrmB or Fmu) proteins. This family includes two orthologous groups exemplified by the transcription termination factor NusB and the N-terminal domain of the...; Region: NusB_Sun; cl00223 693978003849 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 693978003850 Preprotein translocase subunit; Region: YajC; cl00806 693978003851 Uncharacterized conserved protein [Function unknown]; Region: COG2966 693978003852 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 693978003853 Protein of unknown function (DUF1212); Region: DUF1212; cl01118 693978003854 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 693978003855 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 693978003856 NAD(P) binding site [chemical binding]; other site 693978003857 active site 693978003858 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 693978003859 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 693978003860 active site 693978003861 HIGH motif; other site 693978003862 nucleotide binding site [chemical binding]; other site 693978003863 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 693978003864 KMSKS motif; other site 693978003865 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 693978003866 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 693978003867 GTP cyclohydrolase I; Provisional; Region: PLN03044 693978003868 active site 693978003869 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 693978003870 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 693978003871 UDP-galactopyranose mutase; Region: GLF; pfam03275 693978003872 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 693978003873 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 693978003874 active site 693978003875 OpgC protein; Region: OpgC_C; cl00792 693978003876 Acyltransferase family; Region: Acyl_transf_3; pfam01757 693978003877 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 693978003878 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 693978003879 active site 693978003880 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 693978003881 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 693978003882 active site 693978003883 Maltose O-acyltransferase (MAT)-like: This family is composed of maltose O-acetyltransferase, galactoside O-acetyltransferase (GAT), xenobiotic acyltransferase (XAT) and similar proteins. MAT and GAT catalyze the CoA-dependent acetylation of the...; Region: LbH_MAT_like; cd04647 693978003884 trimer interface [polypeptide binding]; other site 693978003885 active site 693978003886 substrate binding site [chemical binding]; other site 693978003887 CoA binding site [chemical binding]; other site 693978003888 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 693978003889 active site 693978003890 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 693978003891 MatE; Region: MatE; cl10513 693978003892 glucose-1-phosphate thymidylylransferase, long form; Region: rmlA_long; TIGR01208 693978003893 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 693978003894 active site 693978003895 Substrate binding site; other site 693978003896 Mg++ binding site; other site 693978003897 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 693978003898 putative trimer interface [polypeptide binding]; other site 693978003899 putative CoA binding site [chemical binding]; other site 693978003900 Domain of unknown function (DUF4292); Region: DUF4292; pfam14125 693978003901 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 693978003902 Peptidase family M23; Region: Peptidase_M23; pfam01551 693978003903 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 693978003904 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 693978003905 Protein of unknown function (DUF4254); Region: DUF4254; pfam14063 693978003906 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 693978003907 GTP cyclohydrolase II [Coenzyme metabolism]; Region: RibA; COG0807 693978003908 dimerization interface [polypeptide binding]; other site 693978003909 active site 693978003910 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; cl07971 693978003911 This family is most closely related to the GT1 family of glycosyltransferases. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can...; Region: GT1_like_5; cd04962 693978003912 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 693978003913 Protein of unknown function (DUF2851); Region: DUF2851; pfam11013 693978003914 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 693978003915 Protein of unknown function (DUF3810); Region: DUF3810; pfam12725 693978003916 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 693978003917 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 693978003918 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 693978003919 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 693978003920 putative acyl-acceptor binding pocket; other site 693978003921 GtrA-like protein; Region: GtrA; cl00971 693978003922 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 693978003923 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 693978003924 Restriction endonuclease EcoRI; Region: EcoRI; pfam02963 693978003925 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 693978003926 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 693978003927 Malic enzyme, N-terminal domain; Region: malic; pfam00390 693978003928 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 693978003929 putative NAD(P) binding site [chemical binding]; other site 693978003930 Phosphate acetyl/butaryl transferase; Region: PTA_PTB; cl00390 693978003931 Domain of unknown function (DUF4173); Region: DUF4173; pfam13777 693978003932 Helix-turn-helix domains; Region: HTH; cl00088 693978003933 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 693978003934 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 693978003935 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 693978003936 IMPDH: The catalytic domain of the inosine monophosphate dehydrogenase. IMPDH catalyzes the NAD-dependent oxidation of inosine 5'-monophosphate (IMP) to xanthosine 5' monophosphate (XMP). It is a rate-limiting step in the de novo synthesis of the guanine...; Region: IMPDH; cd00381 693978003937 active site 693978003938 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 693978003939 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 693978003940 MsbA is an essential ABC transporter, closely related to eukaryotic MDR proteins. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic...; Region: ABCC_MsbA; cd03251 693978003941 Walker A/P-loop; other site 693978003942 ATP binding site [chemical binding]; other site 693978003943 Q-loop/lid; other site 693978003944 ABC transporter signature motif; other site 693978003945 Walker B; other site 693978003946 D-loop; other site 693978003947 H-loop/switch region; other site 693978003948 Domain of unknown function (DUF4293); Region: DUF4293; pfam14126 693978003949 Rho termination factor, N-terminal domain; Region: Rho_N; cl06505 693978003950 transcription termination factor Rho; Provisional; Region: PRK12608 693978003951 Rho_CSD: Rho protein cold-shock domain (CSD). Rho protein is a transcription termination factor in most bacteria. In bacteria, there are two distinct mechanisms for mRNA transcription termination. In intrinsic termination, RNA polymerase and nascent mRNA...; Region: Rho_CSD; cd04459 693978003952 RNA binding site [nucleotide binding]; other site 693978003953 Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase. It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the...; Region: rho_factor; cd01128 693978003954 multimer interface [polypeptide binding]; other site 693978003955 Walker A motif; other site 693978003956 ATP binding site [chemical binding]; other site 693978003957 Walker B motif; other site 693978003958 3-phytase (myo-inositol-hexaphosphate 3-phosphohydrolase) [Lipid metabolism]; Region: Phy; COG4247 693978003959 Phytase; Region: Phytase; pfam02333 693978003960 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl01383 693978003961 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 693978003962 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 693978003963 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 693978003964 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 693978003965 rRNA interaction site [nucleotide binding]; other site 693978003966 S8 interaction site; other site 693978003967 putative laminin-1 binding site; other site 693978003968 Ribosomal protein S9/S16; Region: Ribosomal_S9; cl00334 693978003969 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 693978003970 23S rRNA interface [nucleotide binding]; other site 693978003971 L3 interface [polypeptide binding]; other site 693978003972 Domain of unknown function DUF59; Region: DUF59; cl00941 693978003973 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 693978003974 active site 693978003975 catalytic site [active] 693978003976 substrate binding site [chemical binding]; other site 693978003977 Nucleoside recognition; Region: Gate; cl00486 693978003978 Nucleoside recognition; Region: Gate; cl00486 693978003979 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 693978003980 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 693978003981 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 693978003982 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 693978003983 FixH; Region: FixH; cl01254 693978003984 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 693978003985 4Fe-4S binding domain; Region: Fer4_5; pfam12801 693978003986 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 693978003987 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 693978003988 Cytochrome c; Region: Cytochrom_C; cl11414 693978003989 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cl00282 693978003990 putative bifunctional cbb3-type cytochrome c oxidase subunit I/II; Provisional; Region: PRK14485 693978003991 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 693978003992 Low-spin heme binding site [chemical binding]; other site 693978003993 Putative water exit pathway; other site 693978003994 Binuclear center (active site) [active] 693978003995 Putative proton exit pathway; other site 693978003996 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 693978003997 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; cl01253 693978003998 Ribosomal protein L24e/L24 is a ribosomal protein found in eukaryotes (L24) and in archaea (L24e, distinct from archaeal L24). L24e/L24 is located on the surface of the large subunit, adjacent to proteins L14 and L3, and near the translation factor...; Region: Ribosomal_L24e_L24; cl00909 693978003999 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 693978004000 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 693978004001 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 693978004002 Haloacid Dehalogenase-like Hydrolases; Region: HAD_like; cl11391 693978004003 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 693978004004 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 693978004005 ligand binding site [chemical binding]; other site 693978004006 flexible hinge region; other site 693978004007 Helix-turn-helix domains; Region: HTH; cl00088 693978004008 Ketopantoate hydroxymethyltransferase (KPHMT) is the first enzyme in the pantothenate biosynthesis pathway. Ketopantoate hydroxymethyltransferase (KPHMT) catalyzes the first committed step in the biosynthesis of pantothenate (vitamin B5), which is a...; Region: KPHMT-like; cd06557 693978004009 active site 693978004010 oligomerization interface [polypeptide binding]; other site 693978004011 metal binding site [ion binding]; metal-binding site 693978004012 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 693978004013 active site 693978004014 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 693978004015 Ribosomal protein S21; Region: Ribosomal_S21; cl00529 693978004016 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 693978004017 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 693978004018 active site 693978004019 DNA binding site [nucleotide binding] 693978004020 Int/Topo IB signature motif; other site 693978004021 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 693978004022 30S subunit binding site; other site 693978004023 Dihydroorotate dehydrogenase (DHOD) class 2. DHOD catalyzes the oxidation of (S)-dihydroorotate to orotate. This is the fourth step and the only redox reaction in the de novo biosynthesis of UMP, the precursor of all pyrimidine nucleotides. DHOD requires...; Region: DHOD_2_like; cd04738 693978004024 quinone interaction residues [chemical binding]; other site 693978004025 Dihydroorotate dehydrogenase [Nucleotide transport and metabolism]; Region: PyrD; COG0167 693978004026 active site 693978004027 catalytic residues [active] 693978004028 FMN binding site [chemical binding]; other site 693978004029 substrate binding site [chemical binding]; other site 693978004030 elongation factor Tu; Reviewed; Region: PRK12735 693978004031 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 693978004032 GEF interaction site [polypeptide binding]; other site 693978004033 GTP/Mg2+ binding site [chemical binding]; other site 693978004034 Switch I region; other site 693978004035 G2 box; other site 693978004036 G3 box; other site 693978004037 Switch II region; other site 693978004038 G4 box; other site 693978004039 G5 box; other site 693978004040 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 693978004041 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 693978004042 Antibiotic Binding Site [chemical binding]; other site 693978004043 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; cl00481 693978004044 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 693978004045 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 693978004046 putative homodimer interface [polypeptide binding]; other site 693978004047 KOW motif; Region: KOW; cl00354 693978004048 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 693978004049 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 693978004050 23S rRNA interface [nucleotide binding]; other site 693978004051 L7/L12 interface [polypeptide binding]; other site 693978004052 putative thiostrepton binding site; other site 693978004053 L25 interface [polypeptide binding]; other site 693978004054 Ribosomal protein L1. The L1 protein, located near the E-site of the ribosome, forms part of the L1 stalk along with 23S rRNA. In bacteria and archaea, L1 functions both as a ribosomal protein that binds rRNA, and as a translation repressor that binds...; Region: Ribosomal_L1; cd00403 693978004055 mRNA/rRNA interface [nucleotide binding]; other site 693978004056 Ribosomal protein L10 family, L10 subfamily; composed of bacterial 50S ribosomal protein and eukaryotic mitochondrial 39S ribosomal protein, L10. L10 occupies the L7/L12 stalk of the ribosome. The N-terminal domain (NTD) of L10 interacts with L11 protein...; Region: Ribosomal_L10; cd05797 693978004057 23S rRNA interface [nucleotide binding]; other site 693978004058 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 693978004059 Ribosomal protein L7/L12. Ribosomal protein L7/L12 refers to the large ribosomal subunit proteins L7 and L12, which are identical except that L7 is acetylated at the N terminus. It is a component of the L7/L12 stalk, which is located at the surface of...; Region: Ribosomal_L7_L12; cd00387 693978004060 peripheral dimer interface [polypeptide binding]; other site 693978004061 core dimer interface [polypeptide binding]; other site 693978004062 L10 interface [polypeptide binding]; other site 693978004063 L11 interface [polypeptide binding]; other site 693978004064 putative EF-Tu interaction site [polypeptide binding]; other site 693978004065 putative EF-G interaction site [polypeptide binding]; other site 693978004066 Thrombospondin type 3 repeat; Region: TSP_3; pfam02412 693978004067 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 693978004068 DNA-directed RNA polymerase subunit beta'; Provisional; Region: PRK00566 693978004069 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 693978004070 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 693978004071 RPB11 interaction site [polypeptide binding]; other site 693978004072 RPB12 interaction site [polypeptide binding]; other site 693978004073 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 693978004074 RPB3 interaction site [polypeptide binding]; other site 693978004075 RPB1 interaction site [polypeptide binding]; other site 693978004076 RPB11 interaction site [polypeptide binding]; other site 693978004077 RPB10 interaction site [polypeptide binding]; other site 693978004078 RNA polymerase beta' subunit; Region: rpoC1; CHL00018 693978004079 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 693978004080 RNA polymerase Rpb1, domain 2; Region: RNA_pol_Rpb1_2; cl11591 693978004081 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 693978004082 DNA-directed RNA polymerase subunit beta'; Provisional; Region: rpoC2; PRK02597 693978004083 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 693978004084 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 693978004085 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 693978004086 bifunctional DNA-directed RNA polymerase subunit beta/beta'; Reviewed; Region: PRK09603 693978004087 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 693978004088 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 693978004089 DNA binding site [nucleotide binding] 693978004090 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 693978004091 Protein of unknown function (DUF3467); Region: DUF3467; pfam11950 693978004092 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 693978004093 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 693978004094 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 693978004095 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 693978004096 Walker A/P-loop; other site 693978004097 ATP binding site [chemical binding]; other site 693978004098 Q-loop/lid; other site 693978004099 ABC transporter signature motif; other site 693978004100 Walker B; other site 693978004101 D-loop; other site 693978004102 H-loop/switch region; other site 693978004103 ABC transporter; Region: ABC_tran_2; pfam12848 693978004104 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth. EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated...; Region: ABCF_EF-3; cd03221 693978004105 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 693978004106 active site 693978004107 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 693978004108 enoyl-CoA hydratase; Provisional; Region: PRK08140 693978004109 substrate binding site [chemical binding]; other site 693978004110 oxyanion hole (OAH) forming residues; other site 693978004111 trimer interface [polypeptide binding]; other site 693978004112 hypothetical protein; Provisional; Region: PRK11820 693978004113 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 693978004114 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 693978004115 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 693978004116 homooctamer interface [polypeptide binding]; other site 693978004117 active site 693978004118 Glycine cleavage H-protein. Glycine cleavage H-proteins are part of the glycine cleavage system (GCS) found in bacteria, archea and the mitochondria of eukaryotes. GCS is a multienzyme complex consisting of 4 different components (P-, H-, T- and...; Region: GCS_H; cd06848 693978004119 lipoyl attachment site [posttranslational modification]; other site 693978004120 VanZ like family; Region: VanZ; cl01971 693978004121 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 693978004122 Adenylation domain of proteins similar to ATP-dependent polynucleotide ligases; Region: Adenylation_DNA_ligase_like; cl12015 693978004123 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 693978004124 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cd00138 693978004125 PLD-like domain; Region: PLDc_2; pfam13091 693978004126 putative active site [active] 693978004127 catalytic site [active] 693978004128 WYL domain; Region: WYL; cl14852 693978004129 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 693978004130 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 693978004131 N-terminal plug; other site 693978004132 ligand-binding site [chemical binding]; other site 693978004133 RNA polymerase sigma-54 factor; Region: rpoN_sigma; TIGR02395 693978004134 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 693978004135 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 693978004136 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 693978004137 EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB...; Region: EcAsnRS_like_N; cd04318 693978004138 putative dimer interface [polypeptide binding]; other site 693978004139 putative anticodon binding site; other site 693978004140 Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as...; Region: AsxRS_core; cd00776 693978004141 homodimer interface [polypeptide binding]; other site 693978004142 motif 1; other site 693978004143 motif 2; other site 693978004144 active site 693978004145 motif 3; other site 693978004146 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 693978004147 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 693978004148 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 693978004149 Cupin domain; Region: Cupin_2; cl09118 693978004150 C-type lectin (CTL)/C-type lectin-like (CTLD) domain; Region: CLECT; cd00037 693978004151 glucokinase, proteobacterial type; Region: glk; TIGR00749 693978004152 FGGY family of carbohydrate kinases, N-terminal domain; Region: FGGY_N; cl09121 693978004153 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 693978004154 Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of...; Region: AlaRS_core; cd00673 693978004155 motif 1; other site 693978004156 active site 693978004157 motif 2; other site 693978004158 motif 3; other site 693978004159 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; cl08469 693978004160 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 693978004161 SurA N-terminal domain; Region: SurA_N_3; cl07813 693978004162 PPIC-type PPIASE domain; Region: Rotamase; cl08278 693978004163 PPIC-type PPIASE domain; Region: Rotamase; cl08278 693978004164 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 693978004165 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 693978004166 substrate binding site [chemical binding]; other site 693978004167 ATP binding site [chemical binding]; other site 693978004168 gliding motility-associated lipoprotein GldD; Region: GldD_lipo; TIGR03512 693978004169 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 693978004170 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 693978004171 minor groove reading motif; other site 693978004172 helix-hairpin-helix signature motif; other site 693978004173 substrate binding pocket [chemical binding]; other site 693978004174 active site 693978004175 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 693978004176 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 693978004177 nudix motif; other site 693978004178 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cd00591 693978004179 IHF dimer interface [polypeptide binding]; other site 693978004180 IHF - DNA interface [nucleotide binding]; other site 693978004181 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 693978004182 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 693978004183 homodimer interface [polypeptide binding]; other site 693978004184 oligonucleotide binding site [chemical binding]; other site 693978004185 Zinc-dependent metalloprotease; MMP_like sub-family 2. A group of bacterial metalloproteinase domains similar to matrix metalloproteinases and astacin; Region: ZnMc_MMP_like_2; cd04276 693978004186 active site 693978004187 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 693978004188 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 693978004189 starch binding outer membrane protein SusD; Region: SusD; cd08977 693978004190 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 693978004191 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 693978004192 RNA binding surface [nucleotide binding]; other site 693978004193 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 693978004194 active site 693978004195 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 693978004196 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 693978004197 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 693978004198 putative recombination protein RecB; Provisional; Region: PRK13909 693978004199 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 693978004200 CRISPR/Cas system-associated protein Cas4; Region: Cas4_I-A_I-B_I-C_I-D_II-B; cl00641 693978004201 Integral membrane protein TerC family; Region: TerC; cl10468 693978004202 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 693978004203 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; cl00336 693978004204 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; cl00522 693978004205 dimerization interface [polypeptide binding]; other site 693978004206 active site 693978004207 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 693978004208 homodimer interface [polypeptide binding]; other site 693978004209 catalytic residues [active] 693978004210 NAD binding site [chemical binding]; other site 693978004211 substrate binding pocket [chemical binding]; other site 693978004212 flexible flap; other site 693978004213 Protein of unknown function (DUF423); Region: DUF423; cl01008 693978004214 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 693978004215 ATP-grasp domain; Region: ATP-grasp_4; cl03087 693978004216 CoA-ligase; Region: Ligase_CoA; cl02894 693978004217 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl01009 693978004218 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 693978004219 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 693978004220 Brown fat-inducible thioesterase (BFIT). Brain acyl-CoA hydrolase (BACH). These enzymes deacylate long-chain fatty acids by hydrolyzing acyl-CoA thioesters to free fatty acids and CoA-SH. Eukaryotic members of this family are expressed in brain, testis; Region: BFIT_BACH; cd03442 693978004221 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 693978004222 CGS_like: Cystathionine gamma-synthase is a PLP dependent enzyme and catalyzes the committed step of methionine biosynthesis. This pathway is unique to microorganisms and plants, rendering the enzyme an attractive target for the development of...; Region: CGS_like; cd00614 693978004223 homodimer interface [polypeptide binding]; other site 693978004224 substrate-cofactor binding pocket; other site 693978004225 pyridoxal 5'-phosphate binding site [chemical binding]; other site 693978004226 catalytic residue [active] 693978004227 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 693978004228 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 693978004229 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 693978004230 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 693978004231 homoserine O-acetyltransferase; Provisional; Region: PRK06765 693978004232 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 693978004233 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 693978004234 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 693978004235 ATP-grasp domain; Region: ATP-grasp_4; cl03087 693978004236 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 693978004237 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 693978004238 active site 693978004239 (T/H)XGH motif; other site 693978004240 Predicted membrane protein [Function unknown]; Region: COG2860 693978004241 UPF0126 domain; Region: UPF0126; pfam03458 693978004242 UPF0126 domain; Region: UPF0126; pfam03458 693978004243 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 693978004244 Protein of unknown function (DUF1343); Region: DUF1343; cl01598 693978004245 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 693978004246 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 693978004247 FtsX-like permease family; Region: FtsX; cl15850 693978004248 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 693978004249 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 693978004250 S-adenosylmethionine binding site [chemical binding]; other site 693978004251 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GpsA; COG0240 693978004252 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 693978004253 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 693978004254 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 693978004255 Coenzyme A binding pocket [chemical binding]; other site 693978004256 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 693978004257 active site residue [active] 693978004258 Protein of unknown function (DUF2459); Region: DUF2459; cl09819 693978004259 Peptidase family M23; Region: Peptidase_M23; pfam01551 693978004260 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 693978004261 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 693978004262 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 693978004263 potential frameshift: common BLAST hit: gi|313207081|ref|YP_004046258.1| yd repeat protein 693978004264 Salmonella virulence plasmid 65kDa B protein; Region: SpvB; pfam03534 693978004265 Insecticide toxin TcdB middle/N-terminal region; Region: TcdB_toxin_midN; pfam12256 693978004266 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 693978004267 RHS Repeat; Region: RHS_repeat; cl11982 693978004268 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 693978004269 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 693978004270 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 693978004271 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 693978004272 ATPase involved in DNA repair; Region: DUF3686; pfam12458 693978004273 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: SbcC; COG0419 693978004274 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 693978004275 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 693978004276 Band_7_flotillin: 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. These two proteins are lipid raft-associated. Individual proteins of...; Region: Band_7_flotillin; cd03399 693978004277 PspA/IM30 family; Region: PspA_IM30; pfam04012 693978004278 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 693978004279 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 693978004280 non-specific DNA binding site [nucleotide binding]; other site 693978004281 salt bridge; other site 693978004282 sequence-specific DNA binding site [nucleotide binding]; other site 693978004283 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 693978004284 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 693978004285 nucleotide binding pocket [chemical binding]; other site 693978004286 K-X-D-G motif; other site 693978004287 catalytic site [active] 693978004288 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 693978004289 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 693978004290 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 693978004291 Dimer interface [polypeptide binding]; other site 693978004292 BRCT sequence motif; other site 693978004293 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 693978004294 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 693978004295 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 693978004296 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 693978004297 putative substrate translocation pore; other site 693978004298 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 693978004299 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 693978004300 microbial_RNases. Ribonucleases (RNAses) cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. The alignment contains fungal RNases (U2, T1, F1, Th, Pb, N1, and Ms) and...; Region: microbial_RNases; cl00212 693978004301 active site 693978004302 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 693978004303 transcriptional regulator MalT; Provisional; Region: PRK04841 693978004304 Protein of unknown function (DUF3109); Region: DUF3109; pfam11307 693978004305 K+ potassium transporter; Region: K_trans; cl15781 693978004306 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 693978004307 metal binding site 2 [ion binding]; metal-binding site 693978004308 putative DNA binding helix; other site 693978004309 metal binding site 1 [ion binding]; metal-binding site 693978004310 dimer interface [polypeptide binding]; other site 693978004311 structural Zn2+ binding site [ion binding]; other site 693978004312 OstA-like protein; Region: OstA; cl00844 693978004313 OstA-like protein; Region: OstA_2; pfam13100 693978004314 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 693978004315 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 693978004316 OstA-like protein; Region: OstA; cl00844 693978004317 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 693978004318 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 693978004319 inhibitor-cofactor binding pocket; inhibition site 693978004320 pyridoxal 5'-phosphate binding site [chemical binding]; other site 693978004321 catalytic residue [active] 693978004322 Sulfatase; Region: Sulfatase; cl10460 693978004323 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 693978004324 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 693978004325 NAD+ synthase is a homodimer, which catalyzes the final step in de novo nicotinamide adenine dinucleotide (NAD+) biosynthesis, an amide transfer from either ammonia or glutamine to nicotinic acid adenine dinucleotide (NaAD). The conversion of NaAD to NAD...; Region: NAD_synthase; cd00553 693978004326 homodimer interface [polypeptide binding]; other site 693978004327 NAD binding pocket [chemical binding]; other site 693978004328 ATP binding pocket [chemical binding]; other site 693978004329 Mg binding site [ion binding]; other site 693978004330 active-site loop [active] 693978004331 gliding motility-associated lipoprotein GldB; Region: GldB_lipo; TIGR03514 693978004332 gliding motility-associated protein GldC; Region: GldC; TIGR03515 693978004333 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 693978004334 Serine acetyltransferase (SAT): SAT catalyzes the CoA-dependent acetylation of the side chain hydroxyl group of L-serine to form O-acetylserine, as the first step of a two-step biosynthetic pathway in bacteria and plants leading to the formation of...; Region: LbH_SAT; cd03354 693978004335 trimer interface [polypeptide binding]; other site 693978004336 active site 693978004337 substrate binding site [chemical binding]; other site 693978004338 CoA binding site [chemical binding]; other site 693978004339 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 693978004340 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 693978004341 dimer interface [polypeptide binding]; other site 693978004342 pyridoxal 5'-phosphate binding site [chemical binding]; other site 693978004343 catalytic residue [active] 693978004344 Flavin Reductases; Region: FlaRed; cl00801 693978004345 Smr domain; Region: Smr; cl02619 693978004346 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 693978004347 ABC transporter transmembrane region; Region: ABC_membrane; cl00549 693978004348 Glucan exporter ATP-binding protein. In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and...; Region: ABCC_Glucan_exporter_like; cd03254 693978004349 Walker A/P-loop; other site 693978004350 ATP binding site [chemical binding]; other site 693978004351 Q-loop/lid; other site 693978004352 ABC transporter signature motif; other site 693978004353 Walker B; other site 693978004354 D-loop; other site 693978004355 H-loop/switch region; other site 693978004356 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 693978004357 gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit; Region: galliderm_ABC; TIGR03740 693978004358 Walker A/P-loop; other site 693978004359 ATP binding site [chemical binding]; other site 693978004360 Q-loop/lid; other site 693978004361 ABC transporter signature motif; other site 693978004362 Walker B; other site 693978004363 D-loop; other site 693978004364 H-loop/switch region; other site 693978004365 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 693978004366 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 693978004367 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 693978004368 dimer interface [polypeptide binding]; other site 693978004369 motif 1; other site 693978004370 active site 693978004371 motif 2; other site 693978004372 motif 3; other site 693978004373 Domain of unknown function (DUF4251); Region: DUF4251; pfam14059 693978004374 coproporphyrinogen III oxidase; Provisional; Region: PRK08599 693978004375 HemN C-terminal domain; Region: HemN_C; pfam06969 693978004376 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 693978004377 Pantoate-beta-alanine ligase; Region: PanC; cd00560 693978004378 pantoate--beta-alanine ligase; Region: panC; TIGR00018 693978004379 active site 693978004380 ATP-binding site [chemical binding]; other site 693978004381 pantoate-binding site; other site 693978004382 HXXH motif; other site 693978004383 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 693978004384 Domain of unknown function (DUF4270); Region: DUF4270; pfam14092 693978004385 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 693978004386 Glutamine amidotransferases class-II (Gn-AT)_GFAT-type. This domain is found at the N-terminus of glucosamine-6P synthase (GlmS, or GFAT in humans). The glutaminase domain catalyzes amide nitrogen transfer from glutamine to the appropriate substrate. In...; Region: GFAT; cd00714 693978004387 glutaminase active site [active] 693978004388 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 693978004389 dimer interface [polypeptide binding]; other site 693978004390 active site 693978004391 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 693978004392 dimer interface [polypeptide binding]; other site 693978004393 active site 693978004394 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; cl15394 693978004395 gliding motility-associated protein GldL; Region: GldL_gliding; TIGR03513 693978004396 gliding motility-associated protein GldM; Region: GldM_gliding; TIGR03517 693978004397 GldM N-terminal domain; Region: GldM_N; pfam12081 693978004398 GldM C-terminal domain; Region: GldM_C; pfam12080 693978004399 gliding motility associated protien GldN; Region: GldN; TIGR03523 693978004400 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 693978004401 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 693978004402 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 693978004403 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 693978004404 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 693978004405 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 693978004406 active site 693978004407 phosphorylation site [posttranslational modification] 693978004408 intermolecular recognition site; other site 693978004409 dimerization interface [polypeptide binding]; other site 693978004410 Effector domain of response regulator. Bacteria and certain eukaryotes like protozoa and higher plants use two-component signal transduction systems to detect and respond to changes in the environment. The system consists of a sensor histidine kinase and...; Region: trans_reg_C; cd00383 693978004411 DNA binding site [nucleotide binding] 693978004412 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cd00082 693978004413 dimer interface [polypeptide binding]; other site 693978004414 phosphorylation site [posttranslational modification] 693978004415 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 693978004416 ATP binding site [chemical binding]; other site 693978004417 Mg2+ binding site [ion binding]; other site 693978004418 G-X-G motif; other site 693978004419 YceI-like domain; Region: YceI; cl01001 693978004420 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 693978004421 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; cl00588 693978004422 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 693978004423 ATP binding site [chemical binding]; other site 693978004424 putative Mg++ binding site [ion binding]; other site 693978004425 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 693978004426 nucleotide binding region [chemical binding]; other site 693978004427 ATP-binding site [chemical binding]; other site 693978004428 TRCF domain; Region: TRCF; cl04088 693978004429 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD includes...; Region: RuvC_resolvase; cl00243 693978004430 Polypeptide or peptide deformylase; a family of metalloenzymes that catalyzes the removal of the N-terminal formyl group in a growing polypeptide chain following translation initiation during protein synthesis in prokaryotes. These enzymes utilize Fe(II)...; Region: Pep_deformylase; cd00487 693978004431 active site 693978004432 catalytic residues [active] 693978004433 metal binding site [ion binding]; metal-binding site 693978004434 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 693978004435 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) N-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs; Region: NTP-PPase_MazG_Nterm; cd11528 693978004436 homodimer interface [polypeptide binding]; other site 693978004437 metal binding site [ion binding]; metal-binding site 693978004438 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) C-terminal tandem-domain of MazG proteins from Escherichia coli and bacterial homologs'; Region: NTP-PPase_MazG_Cterm; cd11529 693978004439 homodimer interface [polypeptide binding]; other site 693978004440 active site 693978004441 putative chemical substrate binding site [chemical binding]; other site 693978004442 metal binding site [ion binding]; metal-binding site 693978004443 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 693978004444 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 693978004445 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 693978004446 shikimate binding site; other site 693978004447 NAD(P) binding site [chemical binding]; other site 693978004448 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 693978004449 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 693978004450 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 693978004451 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 693978004452 catalytic motif [active] 693978004453 Zn binding site [ion binding]; other site 693978004454 Dihydrofolate reductase (DHFR). Reduces 7,8-dihydrofolate to 5,6,7,8-tetrahydrofolate with NADPH as a cofactor. This is an essential step in the biosynthesis of deoxythymidine phosphate since 5,6,7,8-tetrahydrofolate is required to regenerate 5; Region: DHFR; cl00161 693978004455 Response regulator receiver domain; Region: Response_reg; pfam00072 693978004456 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 693978004457 active site 693978004458 phosphorylation site [posttranslational modification] 693978004459 intermolecular recognition site; other site 693978004460 dimerization interface [polypeptide binding]; other site 693978004461 PglZ domain; Region: PglZ; pfam08665 693978004462 Pirin-related protein [General function prediction only]; Region: COG1741 693978004463 Cupin domain; Region: Cupin_2; cl09118 693978004464 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 693978004465 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 693978004466 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 693978004467 Sigma70, region (SR) 4 refers to the most C-terminal of four conserved domains found in Escherichia coli (Ec) sigma70, the main housekeeping sigma, and related sigma-factors (SFs). A SF is a dissociable subunit of RNA polymerase, it directs bacterial or...; Region: Sigma70_r4; cd06171 693978004468 DNA binding residues [nucleotide binding] 693978004469 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 693978004470 Protease Inhibitor Ecotin; homodimeric protease inhibitor; Region: Ecotin; cl00178 693978004471 secondary substrate binding site; other site 693978004472 primary substrate binding site; other site 693978004473 inhibition loop; other site 693978004474 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 693978004475 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 693978004476 Walker A/P-loop; other site 693978004477 ATP binding site [chemical binding]; other site 693978004478 Q-loop/lid; other site 693978004479 ABC transporter signature motif; other site 693978004480 Walker B; other site 693978004481 D-loop; other site 693978004482 H-loop/switch region; other site 693978004483 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 693978004484 NosL; Region: NosL; cl01769 693978004485 nitrous-oxide reductase, Sec-dependent; Region: nitrous_NosZ_Gp; TIGR04246 693978004486 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; cl11412 693978004487 Cytochrome c; Region: Cytochrom_C; cl11414 693978004488 Cytochrome c; Region: Cytochrom_C; cl11414 693978004489 Domain of unknown function DUF77; Region: DUF77; cl00307 693978004490 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 693978004491 ligand binding site [chemical binding]; other site 693978004492 flexible hinge region; other site 693978004493 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 693978004494 Domain of unknown function (DUF1858); Region: DUF1858; cl14817 693978004495 Hemerythrin (Hr) is a non-heme diiron oxygen transport protein found in four marine invertebrate phyla including priapulida, brachiopoda, sipunculida, and annelida, as well as in protozoa. Myohemerythrin (Mhr), a hemerythrin homolog, is found in the...; Region: Hemerythrin; cl15774 693978004496 Predicted transcriptional regulator [Transcription]; Region: COG1959 693978004497 Helix-turn-helix domains; Region: HTH; cl00088 693978004498 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 693978004499 ApbE family; Region: ApbE; cl00643 693978004500 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 693978004501 PepSY-associated TM helix; Region: PepSY_TM_2; cl15813 693978004502 NADPH-dependent FMN reductase; Region: FMN_red; cl00438 693978004503 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 transport...; Region: FNR_like; cl06868 693978004504 FAD binding pocket [chemical binding]; other site 693978004505 conserved FAD binding motif [chemical binding]; other site 693978004506 phosphate binding motif [ion binding]; other site 693978004507 beta-alpha-beta structure motif; other site 693978004508 NAD binding pocket [chemical binding]; other site 693978004509 FlgD Ig-like domain; Region: FlgD_ig; cl15790 693978004510 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 693978004511 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 693978004512 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 693978004513 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 693978004514 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 693978004515 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 693978004516 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 693978004517 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 693978004518 Thioesterase domain; Region: Thioesterase; pfam00975 693978004519 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 693978004520 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 693978004521 Serine dehydratase alpha chain; Region: SDH_alpha; cl12120 693978004522 Helix-turn-helix domains; Region: HTH; cl00088 693978004523 PspC domain; Region: PspC; cl00864 693978004524 Invasion gene expression up-regulator, SirB; Region: SirB; cl01184 693978004525 N-Acyltransferase superfamily: Various enyzmes that characteristicly catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl00357 693978004526 putative acyl-acceptor binding pocket; other site 693978004527 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 693978004528 CoenzymeA binding site [chemical binding]; other site 693978004529 subunit interaction site [polypeptide binding]; other site 693978004530 PHB binding site; other site 693978004531 chorismate binding enzyme; Region: Chorismate_bind; cl10555 693978004532 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 693978004533 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 693978004534 ligand binding site [chemical binding]; other site 693978004535 flexible hinge region; other site 693978004536 Helix-turn-helix domains; Region: HTH; cl00088 693978004537 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 693978004538 The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids. The genes yhbG and yhbN are located in a single operon and may function together in...; Region: ABC_YhbG; cd03218 693978004539 Walker A/P-loop; other site 693978004540 ATP binding site [chemical binding]; other site 693978004541 Q-loop/lid; other site 693978004542 ABC transporter signature motif; other site 693978004543 Walker B; other site 693978004544 D-loop; other site 693978004545 H-loop/switch region; other site 693978004546 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; cl00920 693978004547 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 693978004548 Thiamine pyrophosphokinase; Region: TPK; cd07995 693978004549 active site 693978004550 dimerization interface [polypeptide binding]; other site 693978004551 thiamine binding site [chemical binding]; other site 693978004552 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 693978004553 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 693978004554 dimer interface [polypeptide binding]; other site 693978004555 active site 693978004556 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 693978004557 catalytic residues [active] 693978004558 substrate binding site [chemical binding]; other site 693978004559 Arginase family; Region: Arginase; cl00306 693978004560 Protein of unknown function (DUF1304); Region: DUF1304; cl01533 693978004561 Protein of unknown function (DUF419); Region: DUF419; cl15265 693978004562 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 693978004563 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 693978004564 active site 693978004565 Riboflavin kinase; Region: Flavokinase; cl03312 693978004566 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 693978004567 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; cl15275 693978004568 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 693978004569 alpha subunit interaction interface [polypeptide binding]; other site 693978004570 Walker A motif; other site 693978004571 ATP binding site [chemical binding]; other site 693978004572 Walker B motif; other site 693978004573 inhibitor binding site; inhibition site 693978004574 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 693978004575 ATP synthase, Delta/Epsilon chain, beta-sandwich domain; Region: ATP-synt_DE_N; cl10033 693978004576 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 693978004577 active site 693978004578 multimer interface [polypeptide binding]; other site 693978004579 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 693978004580 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 693978004581 homodimer interface [polypeptide binding]; other site 693978004582 substrate-cofactor binding pocket; other site 693978004583 pyridoxal 5'-phosphate binding site [chemical binding]; other site 693978004584 catalytic residue [active] 693978004585 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; cl16911 693978004586 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 693978004587 ligand binding site [chemical binding]; other site 693978004588 active site 693978004589 UGI interface [polypeptide binding]; other site 693978004590 catalytic site [active] 693978004591 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 693978004592 UDP-N-acetylmuramate-alanine ligase [Cell envelope biogenesis, outer membrane]; Region: MurC; COG0773 693978004593 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 693978004594 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 693978004595 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 693978004596 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 693978004597 Tryptophan synthase beta superfamily (fold type II); this family of pyridoxal phosphate (PLP)-dependent enzymes catalyzes beta-replacement and beta-elimination reactions. This CD corresponds to aminocyclopropane-1-carboxylate deaminase (ACCD), tryptophan...; Region: Trp-synth-beta_II; cl00342 693978004598 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 693978004599 catalytic residue [active] 693978004600 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 693978004601 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cl00107 693978004602 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 693978004603 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 693978004604 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 693978004605 inhibitor-cofactor binding pocket; inhibition site 693978004606 pyridoxal 5'-phosphate binding site [chemical binding]; other site 693978004607 catalytic residue [active] 693978004608 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 693978004609 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 693978004610 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 693978004611 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 693978004612 GAF domain; Region: GAF; cl15785 693978004613 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl15780 693978004614 HIRAN domain; Region: HIRAN; cl07418 693978004615 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 693978004616 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 693978004617 ATP binding site [chemical binding]; other site 693978004618 putative Mg++ binding site [ion binding]; other site 693978004619 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 693978004620 HsdM N-terminal domain; Region: HsdM_N; pfam12161 693978004621 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; cl16911 693978004622 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 693978004623 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 693978004624 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 693978004625 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 693978004626 integrating conjugative element protein, PFL_4705 family; Region: conj_TIGR03752 693978004627 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 693978004628 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; cl14958 693978004629 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 693978004630 ATP binding site [chemical binding]; other site 693978004631 putative Mg++ binding site [ion binding]; other site 693978004632 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 693978004633 nucleotide binding region [chemical binding]; other site 693978004634 ATP-binding site [chemical binding]; other site 693978004635 Exonuclease-Endonuclease-Phosphatase domain; uncharacterized family 1; Region: EEP-1; cd09083 693978004636 putative catalytic site [active] 693978004637 putative metal binding site [ion binding]; other site 693978004638 putative phosphate binding site [ion binding]; other site 693978004639 Uncharacterized hypothetical proteins similar to the catalytic domains of Phosphoinositide-specific phospholipaseand Glycerophosphodiester phosphodiesterases; Region: PI-PLCc_GDPD_SF_unchar3; cd08577 693978004640 putative active site [active] 693978004641 catalytic site [active] 693978004642 Alkaline phosphatase homologues; alkaline phosphatases are non-specific phosphomonoesterases that catalyze the hydrolysis reaction via a phosphoseryl intermediate to produce inorganic phosphate and the corresponding alcohol, optimally at high pH; Region: alkPPc; cl15837 693978004643 active site 693978004644 dimer interface [polypeptide binding]; other site 693978004645 starch binding outer membrane protein SusD; Region: SusD; cl15876 693978004646 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 693978004647 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 693978004648 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 693978004649 Saccharomyces cerevisiae DCR2 phosphatase and related proteins, metallophosphatase domain; Region: MPP_Dcr2; cd07383 693978004650 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 693978004651 putative active site [active] 693978004652 putative metal binding site [ion binding]; other site 693978004653 PA14 domain; Region: PA14; cl08459 693978004654 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 693978004655 putative substrate translocation pore; other site 693978004656 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 693978004657 Porin superfamily. These outer membrane channels share a beta-barrel structure that differ in strand and shear number. Classical (gram-negative ) porins are non-specific channels for small hydrophillic molecules and form 16 beta-stranded barrels (16,20)...; Region: OM_channels; cl01155 693978004658 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 693978004659 intersubunit interface [polypeptide binding]; other site 693978004660 active site 693978004661 catalytic residue [active] 693978004662 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 693978004663 E3 interaction surface; other site 693978004664 lipoyl attachment site [posttranslational modification]; other site 693978004665 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 693978004666 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 693978004667 E3 interaction surface; other site 693978004668 lipoyl attachment site [posttranslational modification]; other site 693978004669 e3 binding domain; Region: E3_binding; pfam02817 693978004670 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; cl02008 693978004671 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 693978004672 Thiamine pyrophosphate (TPP) family, E1 of PDC_ADC_BCADC subfamily, TPP-binding module; composed of proteins similar to the E1 components of the human pyruvate dehydrogenase complex (PDC), the acetoin dehydrogenase complex (ADC) and the branched chain...; Region: TPP_E1_PDC_ADC_BCADC; cd02000 693978004673 tetramer interface [polypeptide binding]; other site 693978004674 TPP-binding site [chemical binding]; other site 693978004675 heterodimer interface [polypeptide binding]; other site 693978004676 phosphorylation loop region [posttranslational modification] 693978004677 Predicted transcriptional regulator [Transcription]; Region: COG2378 693978004678 WYL domain; Region: WYL; cl14852 693978004679 Spore germination protein; Region: Spore_permease; cl15802 693978004680 amino acid transporter; Region: 2A0306; TIGR00909 693978004681 Spore germination protein; Region: Spore_permease; cl15802 693978004682 Nicotinamide mononucleotide transporter; Region: NMN_transporter; cl01256 693978004683 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 693978004684 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 693978004685 starch binding outer membrane protein SusD; Region: SusD; cl15876 693978004686 Domain of unknown function (DUF4302); Region: DUF4302; pfam14135 693978004687 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 693978004688 Imelysin; Region: Peptidase_M75; cl09159 693978004689 Vitamin K-dependent gamma-carboxylase; Region: VKG_Carbox; cl02773 693978004690 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 693978004691 TonB dependent/Ligand-Gated channels are created by a monomeric 22 strand (22,24) anti-parallel beta-barrel. Ligands apparently bind to the large extracellular loops. The N-terminal 150-200 residues form a plug from the periplasmic end of barrel; Region: ligand_gated_channel; cd01347 693978004692 N-terminal plug; other site 693978004693 ligand-binding site [chemical binding]; other site 693978004694 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 693978004695 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 693978004696 Integration host factor (IHF) and HU are small heterodimeric members of the DNABII protein family that bind and bend DNA, functioning as architectural factors in many cellular processes including transcription, site-specific recombination, and...; Region: HU_IHF; cl00257 693978004697 Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. The acceptor molecule can be a lipid, a protein, a heterocyclic compound, or another carbohydrate...; Region: Glycosyltransferase_GTB_type; cl10013 693978004698 Bacterial membrane protein YfhO; Region: YfhO; pfam09586 693978004699 TraB family; Region: TraB; cl12050 693978004700 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 693978004701 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 693978004702 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; cl06870 693978004703 SpoU rRNA Methylase family; Region: SpoU_methylase; cl00362 693978004704 DinB superfamily; Region: DinB_2; pfam12867 693978004705 MoxR-like ATPases [General function prediction only]; Region: COG0714 693978004706 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 693978004707 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 693978004708 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 693978004709 metal ion-dependent adhesion site (MIDAS); other site 693978004710 Oxygen tolerance; Region: BatD; pfam13584 693978004711 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 693978004712 metal ion-dependent adhesion site (MIDAS); other site 693978004713 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 693978004714 metal ion-dependent adhesion site (MIDAS); other site 693978004715 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 693978004716 binding surface 693978004717 Tetratricopeptide repeat; Region: TPR_12; pfam13424 693978004718 TPR motif; other site 693978004719 TPR repeat; Region: TPR_11; pfam13414 693978004720 Oxygen tolerance; Region: BatD; pfam13584 693978004721 MarC family integral membrane protein; Region: MarC; cl00919 693978004722 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 693978004723 active site 693978004724 dimer interface [polypeptide binding]; other site 693978004725 metal binding site [ion binding]; metal-binding site 693978004726 Proline dehydrogenase; Region: Pro_dh; cl03282 693978004727 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; cl14105 693978004728 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 693978004729 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 693978004730 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 693978004731 substrate binding pocket [chemical binding]; other site 693978004732 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 693978004733 B12 binding site [chemical binding]; other site 693978004734 cobalt ligand [ion binding]; other site 693978004735 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 693978004736 Methylenetetrahydrofolate reductase; Region: MTHFR; pfam02219 693978004737 Methylenetetrahydrofolate reductase (MTHFR). 5,10-Methylenetetrahydrofolate is reduced to 5-methyltetrahydrofolate by methylenetetrahydrofolate reductase, a cytoplasmic, NAD(P)-dependent enzyme. 5-methyltetrahydrofolate is utilized by methionine synthase...; Region: MTHFR; cd00537 693978004738 FAD binding site [chemical binding]; other site 693978004739 Condensing enzymes; Family of enzymes that catalyze a (decarboxylating or non-decarboxylating) Claisen-like condensation reaction. Members are share strong structural similarity, and are involved in the synthesis and degradation of fatty acids, and the...; Region: cond_enzymes; cl09938 693978004740 active site 693978004741 7-keto-8-aminopelargonate synthetase and related enzymes [Coenzyme metabolism]; Region: BioF; COG0156 693978004742 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 693978004743 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 693978004744 catalytic residue [active] 693978004745 AAA domain; Region: AAA_26; pfam13500 693978004746 P-loop containing Nucleoside Triphosphate Hydrolases; Region: P-loop_NTPase; cl09099 693978004747 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 693978004748 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 693978004749 inhibitor-cofactor binding pocket; inhibition site 693978004750 pyridoxal 5'-phosphate binding site [chemical binding]; other site 693978004751 catalytic residue [active] 693978004752 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; cl16911 693978004753 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 693978004754 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; cl16911 693978004755 16S rRNA methyltransferase B; Provisional; Region: PRK14902 693978004756 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 693978004757 S-adenosylmethionine binding site [chemical binding]; other site 693978004758 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 693978004759 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 693978004760 active site 693978004761 NTP binding site [chemical binding]; other site 693978004762 metal binding triad [ion binding]; metal-binding site 693978004763 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 693978004764 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 693978004765 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cl00076 693978004766 aconitate hydratase, mitochondrial; Region: aconitase_mito; TIGR01340 693978004767 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Mitochondrial; cd01584 693978004768 substrate binding site [chemical binding]; other site 693978004769 ligand binding site [chemical binding]; other site 693978004770 Aconitase swivel domain. Aconitase (aconitate hydratase) catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle. This is the aconitase swivel domain, which undergoes swivelling conformational change in the enzyme...; Region: Aconitase_swivel; cl00215 693978004771 substrate binding site [chemical binding]; other site 693978004772 Protein of unknown function (Porph_ging); Region: Porph_ging; cl09903 693978004773 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 693978004774 Protein of unknown function (Porph_ging); Region: Porph_ging; cl09903 693978004775 DNA-directed RNA polymerase, subunit A''; Region: RNA_pol_rpoA2; TIGR02389 693978004776 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 693978004777 Protein of unknown function (DUF3347); Region: DUF3347; pfam11827 693978004778 Helix-turn-helix domain; Region: HTH_18; pfam12833 693978004779 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 693978004780 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 693978004781 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 693978004782 metal-binding site [ion binding]