-- dump date 20140620_035205 -- class Genbank::misc_feature -- table misc_feature_note -- id note 693978000001 Multicopper oxidase; Region: Cu-oxidase; pfam00394 693978000002 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 693978000003 Phage derived protein Gp49-like (DUF891); Region: Gp49; pfam05973 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 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 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; pfam05973 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 DNA adenine methylase (dam); Region: dam; TIGR00571 693978000021 DpnII restriction endonuclease; Region: DpnII; pfam04556 693978000022 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 693978000023 DNA methylase; Region: N6_N4_Mtase; pfam01555 693978000024 GLPGLI family protein; Region: GLPGLI; TIGR01200 693978000025 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 693978000026 Sel1 repeat; Region: Sel1; cl02723 693978000027 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 693978000028 Protein of unknown function with HXXEE motif; Region: HXXEE; pfam13787 693978000029 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 693978000030 oligomeric interface; other site 693978000031 putative active site [active] 693978000032 homodimer interface [polypeptide binding]; other site 693978000033 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 693978000034 Plasmid encoded toxin Txe; Region: Plasmid_Txe; pfam06769 693978000035 PIN domain; Region: PIN_3; cl17397 693978000036 RelA- and SpoT-like ppGpp Synthetases and Hydrolases, catalytic domain; Region: Rel-Spo_like; cl11966 693978000037 metal binding triad [ion binding]; metal-binding site 693978000038 Predicted nucleotide-binding protein containing TIR-like domain; Region: TIR-like; cl17861 693978000039 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 693978000040 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 693978000041 Walker A motif; other site 693978000042 ATP binding site [chemical binding]; other site 693978000043 Walker B motif; other site 693978000044 arginine finger; other site 693978000045 McrBC 5-methylcytosine restriction system component; Region: McrBC; cl01737 693978000046 Protein of unknown function (Porph_ging); Region: Porph_ging; cl09903 693978000047 Clp protease; Region: CLP_protease; pfam00574 693978000048 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 693978000049 oligomer interface [polypeptide binding]; other site 693978000050 active site residues [active] 693978000051 DNA primase, catalytic core; Region: dnaG; TIGR01391 693978000052 CHC2 zinc finger; Region: zf-CHC2; pfam01807 693978000053 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 693978000054 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 693978000055 active site 693978000056 metal binding site [ion binding]; metal-binding site 693978000057 interdomain interaction site; other site 693978000058 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 693978000059 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 693978000060 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 693978000061 multidrug efflux protein; Reviewed; Region: PRK01766 693978000062 cation binding site [ion binding]; other site 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; Provisional; Region: mscL; PRK13952 693978000079 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 693978000080 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 693978000081 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 693978000082 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 693978000083 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 693978000084 putative acyl-acceptor binding pocket; other site 693978000085 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 693978000086 putative active site [active] 693978000087 putative CoA binding site [chemical binding]; other site 693978000088 nudix motif; other site 693978000089 metal binding site [ion binding]; metal-binding site 693978000090 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 693978000091 TrkA-N domain; Region: TrkA_N; pfam02254 693978000092 TrkA-C domain; Region: TrkA_C; pfam02080 693978000093 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 693978000094 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 693978000095 prephenate dehydrogenase; Validated; Region: PRK08507 693978000096 Prephenate dehydrogenase; Region: PDH; pfam02153 693978000097 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 693978000098 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 693978000099 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 693978000100 hexamer interface [polypeptide binding]; other site 693978000101 ligand binding site [chemical binding]; other site 693978000102 putative active site [active] 693978000103 NAD(P) binding site [chemical binding]; other site 693978000104 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 693978000105 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 693978000106 active site 693978000107 lipid A phosphoethanolamine transferase; Reviewed; Region: PRK09598 693978000108 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 693978000109 Sulfatase; Region: Sulfatase; pfam00884 693978000110 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 693978000111 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 693978000112 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 693978000113 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 693978000114 Walker A/P-loop; other site 693978000115 ATP binding site [chemical binding]; other site 693978000116 Q-loop/lid; other site 693978000117 ABC transporter signature motif; other site 693978000118 Walker B; other site 693978000119 D-loop; other site 693978000120 H-loop/switch region; other site 693978000121 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 693978000122 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; cl17244 693978000123 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 693978000124 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 693978000125 Conserved hypothetical protein 95; Region: Cons_hypoth95; pfam03602 693978000126 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 693978000127 S-adenosylmethionine binding site [chemical binding]; other site 693978000128 Protein of unknown function (DUF3822); Region: DUF3822; pfam12864 693978000129 short chain dehydrogenase; Provisional; Region: PRK07326 693978000130 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 693978000131 NAD(P) binding site [chemical binding]; other site 693978000132 active site 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_beta; cd01714 693978000134 Ligand binding site [chemical binding]; other site 693978000135 Electron transfer flavoprotein domain; Region: ETF; pfam01012 693978000136 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 693978000137 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 693978000138 Ligand binding site [chemical binding]; other site 693978000139 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 693978000140 Bifunctional nuclease; Region: DNase-RNase; pfam02577 693978000141 nucleoside transporter; Region: 2A0110; TIGR00889 693978000142 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 693978000143 putative substrate translocation pore; other site 693978000144 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 693978000145 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 693978000146 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 693978000147 DNA binding residues [nucleotide binding] 693978000148 glutathione-regulated potassium-efflux system protein KefB; Provisional; Region: PRK03659 693978000149 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 693978000150 TrkA-N domain; Region: TrkA_N; pfam02254 693978000151 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 693978000152 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 693978000153 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 693978000154 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 693978000155 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 693978000156 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all...; Region: FN3; cd00063 693978000157 H+ Antiporter protein; Region: 2A0121; TIGR00900 693978000158 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 693978000159 putative substrate translocation pore; other site 693978000160 GH3 auxin-responsive promoter; Region: GH3; pfam03321 693978000161 thioredoxin-disulfide reductase; Region: TRX_reduct; TIGR01292 693978000162 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 693978000163 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 693978000164 Integral membrane protein possibly involved in chromosome condensation [Cell division and chromosome partitioning]; Region: CrcB; COG0239 693978000165 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 693978000166 sequence-specific DNA binding site [nucleotide binding]; other site 693978000167 salt bridge; other site 693978000168 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 693978000169 non-specific DNA binding site [nucleotide binding]; other site 693978000170 salt bridge; other site 693978000171 sequence-specific DNA binding site [nucleotide binding]; other site 693978000172 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 693978000173 active site 693978000174 metal binding site [ion binding]; metal-binding site 693978000175 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 693978000176 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 693978000177 Prophage endopeptidase tail; Region: Prophage_tail; cl12123 693978000178 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 693978000179 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 693978000180 salt bridge; other site 693978000181 non-specific DNA binding site [nucleotide binding]; other site 693978000182 sequence-specific DNA binding site [nucleotide binding]; other site 693978000183 Mu-like prophage protein [General function prediction only]; Region: COG3941 693978000184 chromosome segregation protein; Provisional; Region: PRK03918 693978000185 Abi-like protein; Region: Abi_2; pfam07751 693978000186 AntA/AntB antirepressor; Region: AntA; cl01430 693978000187 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 693978000188 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 693978000189 cytochrome c-550; Provisional; Region: psbV; PRK13621 693978000190 Phage portal protein, SPP1 Gp6-like; Region: Phage_prot_Gp6; pfam05133 693978000191 phage portal protein, SPP1 family; Region: portal_SPP1; TIGR01538 693978000192 Phage terminase large subunit; Region: Terminase_3; cl12054 693978000193 Terminase-like family; Region: Terminase_6; pfam03237 693978000194 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 693978000195 Ligand Binding Site [chemical binding]; other site 693978000196 Bacteriophage Lambda NinG protein; Region: NinG; pfam05766 693978000197 Protein of unknown function (DUF2693); Region: DUF2693; pfam10902 693978000198 AntA/AntB antirepressor; Region: AntA; pfam08346 693978000199 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 693978000200 DNA-damage-inducible protein D; Provisional; Region: dinD; PRK11525 693978000201 BRO family, N-terminal domain; Region: Bro-N; cl10591 693978000202 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 693978000203 putative metal binding site [ion binding]; other site 693978000204 Fructose-1,6-bisphosphatase; Region: FBPase_3; cl00862 693978000205 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 693978000206 Ligand Binding Site [chemical binding]; other site 693978000207 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 693978000208 S-adenosylmethionine binding site [chemical binding]; other site 693978000209 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 693978000210 Conserved phage C-terminus (Phg_2220_C); Region: Phg_2220_C; cl09752 693978000211 YqaJ-like viral recombinase domain; Region: YqaJ; pfam09588 693978000212 ERF superfamily; Region: ERF; pfam04404 693978000213 Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]; Region: RuvB; COG2255 693978000214 lysine-specific histone demethylase 1 homolog; Region: PLN02328 693978000215 ribosome recycling factor; Reviewed; Region: frr; PRK00083 693978000216 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...; Region: RRF; cd00520 693978000217 hinge region; other site 693978000218 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 693978000219 putative nucleotide binding site [chemical binding]; other site 693978000220 uridine monophosphate binding site [chemical binding]; other site 693978000221 homohexameric interface [polypeptide binding]; other site 693978000222 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 693978000223 tRNA pseudouridine(55) synthase; Region: TruB; TIGR00431 693978000224 RNA binding site [nucleotide binding]; other site 693978000225 active site 693978000226 HD domain; Region: HD_4; pfam13328 693978000227 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 693978000228 amino acid transporter; Region: 2A0306; TIGR00909 693978000229 C-terminal domain of CHU protein family; Region: CHU_C; pfam13585 693978000230 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 693978000231 active site pocket [active] 693978000232 oxyanion hole [active] 693978000233 catalytic triad [active] 693978000234 active site nucleophile [active] 693978000235 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 693978000236 active site 693978000237 DnaA N-terminal domain; Region: DnaA_N; pfam11638 693978000238 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 693978000239 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 693978000240 Walker A motif; other site 693978000241 ATP binding site [chemical binding]; other site 693978000242 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; cl17189 693978000243 Walker B motif; other site 693978000244 arginine finger; other site 693978000245 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 693978000246 DnaA box-binding interface [nucleotide binding]; other site 693978000247 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 693978000248 Low molecular weight phosphatase family; Region: LMWPc; cd00115 693978000249 active site 693978000250 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 693978000251 putative SAM binding site [chemical binding]; other site 693978000252 homodimer interface [polypeptide binding]; other site 693978000253 Rrf2 family protein; Region: rrf2_super; TIGR00738 693978000254 Transcriptional regulator; Region: Rrf2; pfam02082 693978000255 DNA-binding transcriptional regulator AsnC; Provisional; Region: PRK11179 693978000256 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 693978000257 putative DNA binding site [nucleotide binding]; other site 693978000258 putative Zn2+ binding site [ion binding]; other site 693978000259 AsnC family; Region: AsnC_trans_reg; pfam01037 693978000260 Family of unknown function (DUF490); Region: DUF490; pfam04357 693978000261 UGMP family protein; Validated; Region: PRK09604 693978000262 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 693978000263 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 693978000264 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 693978000265 Protein of unknown function (DUF3098); Region: DUF3098; pfam11297 693978000266 cell division ABC transporter subunit FtsX; Provisional; Region: ftsX; PRK11026 693978000267 Cell division protein [Cell division and chromosome partitioning]; Region: FtsX; COG2177 693978000268 FtsX-like permease family; Region: FtsX; pfam02687 693978000269 exodeoxyribonuclease X; Provisional; Region: PRK07983 693978000270 exodeoxyribonuclease X; Provisional; Region: PRK07983 693978000271 Isochorismatase family; Region: Isochorismatase; pfam00857 693978000272 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 693978000273 catalytic triad [active] 693978000274 conserved cis-peptide bond; other site 693978000275 NAD-dependent deacetylase; Provisional; Region: PRK00481 693978000276 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 693978000277 NAD+ binding site [chemical binding]; other site 693978000278 substrate binding site [chemical binding]; other site 693978000279 Zn binding site [ion binding]; other site 693978000280 Mn-dependent transcriptional regulator [Transcription]; Region: TroR; COG1321 693978000281 Iron dependent repressor, N-terminal DNA binding domain; Region: Fe_dep_repress; pfam01325 693978000282 Iron dependent repressor, metal binding and dimerisation domain; Region: Fe_dep_repr_C; pfam02742 693978000283 FeoA domain; Region: FeoA; pfam04023 693978000284 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 693978000285 Uncharacterized subfamily of the Thermotoga maritima CorA-like family; Region: TmCorA-like_u3; cd12832 693978000286 oligomer interface [polypeptide binding]; other site 693978000287 metal binding site [ion binding]; metal-binding site 693978000288 putative Cl binding site [ion binding]; other site 693978000289 basic sphincter; other site 693978000290 hydrophobic gate; other site 693978000291 periplasmic entrance; other site 693978000292 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 693978000293 dihydrodipicolinate synthase; Region: dapA; TIGR00674 693978000294 dimer interface [polypeptide binding]; other site 693978000295 active site 693978000296 catalytic residue [active] 693978000297 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 693978000298 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 693978000299 starch binding outer membrane protein SusD; Region: SusD; cd08977 693978000300 Glycoside hydrolase 97; Region: Glyco_hydro_97; pfam10566 693978000301 Uncharacterized protein related to the periplasmic component of the Tol biopolymer transport system [Function unknown]; Region: COG4946 693978000302 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 693978000303 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 693978000304 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 693978000305 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 693978000306 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 693978000307 protein binding site [polypeptide binding]; other site 693978000308 Tricorn protease; serine protease family S41; Region: Peptidase_S41_TRI; cd07562 693978000309 Domain interface; other site 693978000310 Peptide binding site; other site 693978000311 Active site tetrad [active] 693978000312 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 693978000313 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 693978000314 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; cl01544 693978000315 Site-specific recombinase; Region: SpecificRecomb; cl15411 693978000316 Transglycosylase; Region: Transgly; cl17702 693978000317 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 693978000318 phosphodiesterase YaeI; Provisional; Region: PRK11340 693978000319 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 693978000320 putative active site [active] 693978000321 putative metal binding site [ion binding]; other site 693978000322 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 693978000323 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 693978000324 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 693978000325 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 693978000326 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 693978000327 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 693978000328 Clade 1 of the heme-binding enzyme catalase; Region: catalase_clade_1; cd08154 693978000329 tetramer interface [polypeptide binding]; other site 693978000330 heme binding pocket [chemical binding]; other site 693978000331 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 693978000332 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 693978000333 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 693978000334 Protein of unknown function (Porph_ging); Region: Porph_ging; cl09903 693978000335 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 693978000336 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; cl17585 693978000337 3-oxoacyl-[acyl-carrier-protein]; Region: FabH; COG0332 693978000338 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 693978000339 dimer interface [polypeptide binding]; other site 693978000340 active site 693978000341 CoA binding pocket [chemical binding]; other site 693978000342 Membrane protein of unknown function; Region: DUF360; pfam04020 693978000343 IgA Peptidase M64; Region: Peptidase_M64; pfam09471 693978000344 GTP-binding protein YchF; Reviewed; Region: PRK09601 693978000345 YchF GTPase; Region: YchF; cd01900 693978000346 G1 box; other site 693978000347 GTP/Mg2+ binding site [chemical binding]; other site 693978000348 Switch I region; other site 693978000349 G2 box; other site 693978000350 Switch II region; other site 693978000351 G3 box; other site 693978000352 G4 box; other site 693978000353 G5 box; other site 693978000354 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 693978000355 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 693978000356 Enoyl-(Acyl carrier protein) reductase; Region: adh_short_C2; pfam13561 693978000357 NAD(P) binding site [chemical binding]; other site 693978000358 active site 693978000359 peptidyl-prolyl cis-trans isomerase A (rotamase A); Provisional; Region: PRK10903 693978000360 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 693978000361 active site 693978000362 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 693978000363 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 693978000364 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 693978000365 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 693978000366 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 693978000367 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 693978000368 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 693978000369 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 693978000370 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 693978000371 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 693978000372 substrate binding site [chemical binding]; other site 693978000373 oxyanion hole (OAH) forming residues; other site 693978000374 trimer interface [polypeptide binding]; other site 693978000375 acetyl-CoA acetyltransferase; Provisional; Region: PRK07661 693978000376 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 693978000377 dimer interface [polypeptide binding]; other site 693978000378 active site 693978000379 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 693978000380 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 693978000381 active site 693978000382 Protein of unknown function (DUF2400); Region: DUF2400; pfam09674 693978000383 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 693978000384 active site 693978000385 dimerization interface [polypeptide binding]; other site 693978000386 adenylate kinase; Reviewed; Region: adk; PRK00279 693978000387 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 693978000388 AMP-binding site [chemical binding]; other site 693978000389 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 693978000390 GTPase CgtA; Reviewed; Region: obgE; PRK12299 693978000391 GTP1/OBG; Region: GTP1_OBG; pfam01018 693978000392 Obg GTPase; Region: Obg; cd01898 693978000393 G1 box; other site 693978000394 GTP/Mg2+ binding site [chemical binding]; other site 693978000395 Switch I region; other site 693978000396 G2 box; other site 693978000397 G3 box; other site 693978000398 Switch II region; other site 693978000399 G4 box; other site 693978000400 G5 box; other site 693978000401 Predicted metal-dependent hydrolases with the TIM-barrel fold [General function prediction only]; Region: COG1099 693978000402 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 693978000403 active site 693978000404 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 693978000405 FAD binding domain; Region: FAD_binding_4; pfam01565 693978000406 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 693978000407 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 693978000408 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 693978000409 ligand binding site [chemical binding]; other site 693978000410 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 693978000411 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 693978000412 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 693978000413 DNA polymerase III, delta subunit; Region: DNA_pol3_delta2; pfam13177 693978000414 DNA polymerase III subunit delta'; Validated; Region: PRK08485 693978000415 ATPase involved in DNA replication [DNA replication, recombination, and repair]; Region: HolB; COG0470 693978000416 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 693978000417 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 693978000418 nudix motif; other site 693978000419 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 693978000420 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 693978000421 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 693978000422 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 693978000423 gliding motility-associated lipoprotein GldJ; Region: GldJ; TIGR03524 693978000424 Peptidase C25 family N-terminal domain, found in Arg-gingipain (Rgp), Lys-gingipain (Kgp) and related proteins; Region: Peptidase_C25_N; cd02258 693978000425 active site 693978000426 FlgD Ig-like domain; Region: FlgD_ig; pfam13860 693978000427 Protein of unknown function (DUF3308); Region: DUF3308; cl14675 693978000428 S-adenosyl-l-methionine hydroxide adenosyltransferase; Region: SAM_adeno_trans; pfam01887 693978000429 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 693978000430 gliding motility-associated ABC transporter permease protein GldF; Region: ABC_perm_GldF; TIGR03518 693978000431 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 693978000432 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 693978000433 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 693978000434 putative ADP-binding pocket [chemical binding]; other site 693978000435 Superfamily II DNA helicase [DNA replication, recombination, and repair]; Region: RecQ; COG0514 693978000436 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 693978000437 ATP binding site [chemical binding]; other site 693978000438 putative Mg++ binding site [ion binding]; other site 693978000439 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 693978000440 nucleotide binding region [chemical binding]; other site 693978000441 ATP-binding site [chemical binding]; other site 693978000442 RQC domain; Region: RQC; pfam09382 693978000443 HRDC domain; Region: HRDC; pfam00570 693978000444 KpsF/GutQ family protein; Region: kpsF; TIGR00393 693978000445 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 693978000446 putative active site [active] 693978000447 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 693978000448 Protein of unknown function (DUF2723); Region: DUF2723; pfam11028 693978000449 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 693978000450 catalytic residues [active] 693978000451 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 693978000452 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 693978000453 dimer interface [polypeptide binding]; other site 693978000454 decamer (pentamer of dimers) interface [polypeptide binding]; other site 693978000455 catalytic triad [active] 693978000456 peroxidatic and resolving cysteines [active] 693978000457 aspartate aminotransferase; Provisional; Region: PRK05764 693978000458 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 693978000459 pyridoxal 5'-phosphate binding site [chemical binding]; other site 693978000460 homodimer interface [polypeptide binding]; other site 693978000461 catalytic residue [active] 693978000462 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 693978000463 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 693978000464 ligand binding site [chemical binding]; other site 693978000465 flexible hinge region; other site 693978000466 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 693978000467 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 693978000468 trmE is a tRNA modification GTPase; Region: trmE; cd04164 693978000469 G1 box; other site 693978000470 GTP/Mg2+ binding site [chemical binding]; other site 693978000471 Switch I region; other site 693978000472 G2 box; other site 693978000473 Switch II region; other site 693978000474 G3 box; other site 693978000475 G4 box; other site 693978000476 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 693978000477 Domain of unknown function (DUF336); Region: DUF336; cl01249 693978000478 Domain of unknown function (DUF336); Region: DUF336; cl01249 693978000479 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 693978000480 active site 693978000481 homotetramer interface [polypeptide binding]; other site 693978000482 YceI-like domain; Region: YceI; pfam04264 693978000483 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 693978000484 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 693978000485 active site 693978000486 catalytic residues [active] 693978000487 WbqC-like protein family; Region: WbqC; pfam08889 693978000488 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 693978000489 Catalytic site [active] 693978000490 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 693978000491 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 693978000492 Dihydrodipicolinate reductase [Amino acid transport and metabolism]; Region: DapB; COG0289 693978000493 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 693978000494 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 693978000495 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 693978000496 ParB-like nuclease domain; Region: ParB; smart00470 693978000497 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 693978000498 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 693978000499 P-loop; other site 693978000500 Magnesium ion binding site [ion binding]; other site 693978000501 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 693978000502 Magnesium ion binding site [ion binding]; other site 693978000503 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 693978000504 Predicted permeases [General function prediction only]; Region: COG0795 693978000505 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 693978000506 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 693978000507 Outer membrane lipoprotein-sorting protein [Cell envelope biogenesis, outer membrane]; Region: LolA; COG2834 693978000508 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 693978000509 DNA segregation ATPase FtsK/SpoIIIE and related proteins [Cell division and chromosome partitioning]; Region: FtsK; COG1674 693978000510 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 693978000511 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 693978000512 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 693978000513 DNA polymerase III, delta subunit; Region: holA; TIGR01128 693978000514 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 693978000515 Deoxynucleoside kinases [Nucleotide transport and metabolism]; Region: COG1428 693978000516 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 693978000517 Substrate-binding site [chemical binding]; other site 693978000518 Substrate specificity [chemical binding]; other site 693978000519 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 693978000520 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 693978000521 NlpC/P60 family; Region: NLPC_P60; pfam00877 693978000522 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 693978000523 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 693978000524 trimer interface [polypeptide binding]; other site 693978000525 active site 693978000526 substrate binding site [chemical binding]; other site 693978000527 CoA binding site [chemical binding]; other site 693978000528 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 693978000529 Putative Catalytic site; other site 693978000530 DXD motif; other site 693978000531 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 693978000532 putative active site [active] 693978000533 putative catalytic site [active] 693978000534 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 693978000535 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 693978000536 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 693978000537 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 693978000538 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 693978000539 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 693978000540 GMP synthase; Reviewed; Region: guaA; PRK00074 693978000541 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 693978000542 AMP/PPi binding site [chemical binding]; other site 693978000543 candidate oxyanion hole; other site 693978000544 catalytic triad [active] 693978000545 potential glutamine specificity residues [chemical binding]; other site 693978000546 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 693978000547 ATP Binding subdomain [chemical binding]; other site 693978000548 Ligand Binding sites [chemical binding]; other site 693978000549 Dimerization subdomain; other site 693978000550 Mechanosensitive ion channel; Region: MS_channel; pfam00924 693978000551 Protein of unknown function (DUF1015); Region: DUF1015; pfam06245 693978000552 Uncharacterized conserved protein [Function unknown]; Region: COG4198 693978000553 Phosphoglycerate dehydrogenase (PGDH) NAD-binding and catalytic domains; Region: PGDH_2; cd05303 693978000554 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 693978000555 putative ligand binding site [chemical binding]; other site 693978000556 NAD binding site [chemical binding]; other site 693978000557 dimerization interface [polypeptide binding]; other site 693978000558 catalytic site [active] 693978000559 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 693978000560 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 693978000561 catalytic residue [active] 693978000562 4Fe-4S binding domain; Region: Fer4; pfam00037 693978000563 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 693978000564 NAD(P) binding site [chemical binding]; other site 693978000565 catalytic residues [active] 693978000566 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 693978000567 Inhibitor of apoptosis-promoting Bax1; Region: Bax1-I; pfam01027 693978000568 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 693978000569 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 693978000570 Zn2+ binding site [ion binding]; other site 693978000571 Mg2+ binding site [ion binding]; other site 693978000572 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 693978000573 Protein of unknown function (DUF493); Region: DUF493; pfam04359 693978000574 Domain of unknown function (DUF4294); Region: DUF4294; pfam14127 693978000575 Cellulase M and related proteins [Carbohydrate transport and metabolism]; Region: FrvX; COG1363 693978000576 M42 Peptidase, Endoglucanases; Region: M42_Frv; cd05656 693978000577 oligomer interface [polypeptide binding]; other site 693978000578 active site 693978000579 metal binding site [ion binding]; metal-binding site 693978000580 GLPGLI family protein; Region: GLPGLI; TIGR01200 693978000581 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 693978000582 isopentenyl-diphosphate delta-isomerase, type 1; Region: IPP_isom_1; TIGR02150 693978000583 active site 693978000584 metal binding site [ion binding]; metal-binding site 693978000585 nudix motif; other site 693978000586 glycine cleavage system aminomethyltransferase T; Reviewed; Region: gcvT; PRK00389 693978000587 Sarcosine oxidase, gamma subunit family; Region: SoxG; cl01893 693978000588 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 693978000589 phosphoglyceromutase; Provisional; Region: PRK05434 693978000590 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 693978000591 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 693978000592 binding surface 693978000593 TPR motif; other site 693978000594 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 693978000595 binding surface 693978000596 TPR motif; other site 693978000597 Tetratricopeptide repeat; Region: TPR_12; pfam13424 693978000598 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 693978000599 binding surface 693978000600 TPR motif; other site 693978000601 Anaphase-promoting complex, cyclosome, subunit 3; Region: Apc3; pfam12895 693978000602 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 693978000603 Tetratricopeptide repeat; Region: TPR_16; pfam13432 693978000604 Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]- X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi; Region: TPR; cl02429 693978000605 TPR motif; other site 693978000606 binding surface 693978000607 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; cl17244 693978000608 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 693978000609 active site 693978000610 DNA binding site [nucleotide binding] 693978000611 Int/Topo IB signature motif; other site 693978000612 Fic family protein [Function unknown]; Region: COG3177 693978000613 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 693978000614 Fic/DOC family; Region: Fic; pfam02661 693978000615 Helix-turn-helix domain; Region: HTH_17; pfam12728 693978000616 AntA/AntB antirepressor; Region: AntA; cl01430 693978000617 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 693978000618 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 693978000619 non-specific DNA binding site [nucleotide binding]; other site 693978000620 salt bridge; other site 693978000621 sequence-specific DNA binding site [nucleotide binding]; other site 693978000622 Protein of unknown function (DUF2693); Region: DUF2693; pfam10902 693978000623 Predicted RNA-bindining protein (contains S1 and HTH domains) [General function prediction only]; Region: COG2996 693978000624 S1 domain; Region: S1_2; pfam13509 693978000625 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 693978000626 NlpE N-terminal domain; Region: NlpE; pfam04170 693978000627 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 693978000628 active site 693978000629 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...; Region: OMP_decarboxylase_like; cd04725 693978000630 active site 693978000631 dimer interface [polypeptide binding]; other site 693978000632 Peptidase S8 family domain in Kp43 proteases; Region: Peptidases_S8_Kp43_protease; cd04842 693978000633 active site 693978000634 catalytic triad [active] 693978000635 Repeats in polycystic kidney disease 1 (PKD1) and other proteins; Region: PKD; smart00089 693978000636 FOG: PKD repeat [General function prediction only]; Region: COG3291 693978000637 Repeats in polycystic kidney disease 1 (PKD1) and other proteins; Region: PKD; smart00089 693978000638 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 693978000639 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 693978000640 active site 693978000641 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 693978000642 active site 693978000643 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 693978000644 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 693978000645 dimerization interface [polypeptide binding]; other site 693978000646 putative ATP binding site [chemical binding]; other site 693978000647 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 693978000648 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 693978000649 active site 693978000650 substrate binding site [chemical binding]; other site 693978000651 cosubstrate binding site; other site 693978000652 catalytic site [active] 693978000653 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 693978000654 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 693978000655 dimer interface [polypeptide binding]; other site 693978000656 anticodon binding site; other site 693978000657 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...; Region: AspRS_core; cd00777 693978000658 homodimer interface [polypeptide binding]; other site 693978000659 motif 1; other site 693978000660 active site 693978000661 motif 2; other site 693978000662 GAD domain; Region: GAD; pfam02938 693978000663 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 693978000664 active site 693978000665 motif 3; other site 693978000666 asparagine synthetase B; Provisional; Region: asnB; PRK09431 693978000667 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 693978000668 active site 693978000669 dimer interface [polypeptide binding]; other site 693978000670 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 693978000671 Ligand Binding Site [chemical binding]; other site 693978000672 Molecular Tunnel; other site 693978000673 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 693978000674 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 693978000675 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 693978000676 RNA binding surface [nucleotide binding]; other site 693978000677 Pseudouridine synthases, RsuA subfamily; Region: PseudoU_synth_RsuA_like; cd02870 693978000678 active site 693978000679 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 693978000680 ABC-type multidrug transport system, ATPase component; Region: ABC_drug_resistance_like; cd03264 693978000681 Walker A/P-loop; other site 693978000682 ATP binding site [chemical binding]; other site 693978000683 Q-loop/lid; other site 693978000684 ABC transporter signature motif; other site 693978000685 Walker B; other site 693978000686 D-loop; other site 693978000687 H-loop/switch region; other site 693978000688 ABC-2 family transporter protein; Region: ABC2_membrane_2; cl17866 693978000689 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 693978000690 ABC-2 family transporter protein; Region: ABC2_membrane_4; pfam12730 693978000691 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 693978000692 Zn binding site [ion binding]; other site 693978000693 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 693978000694 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 693978000695 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 693978000696 Peptidase S8 family domain in Kp43 proteases; Region: Peptidases_S8_Kp43_protease; cd04842 693978000697 active site 693978000698 catalytic triad [active] 693978000699 recombination protein RecR; Reviewed; Region: recR; PRK00076 693978000700 RecR protein; Region: RecR; pfam02132 693978000701 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 693978000702 putative active site [active] 693978000703 putative metal-binding site [ion binding]; other site 693978000704 tetramer interface [polypeptide binding]; other site 693978000705 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 693978000706 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 693978000707 Probable Catalytic site; other site 693978000708 metal-binding site 693978000709 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 693978000710 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 693978000711 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 693978000712 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 693978000713 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 693978000714 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 693978000715 ATP-dependent DNA helicase PcrA; Region: pcrA; TIGR01073 693978000716 Part of AAA domain; Region: AAA_19; pfam13245 693978000717 Family description; Region: UvrD_C_2; pfam13538 693978000718 DNA polymerase I; Provisional; Region: PRK05755 693978000719 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 693978000720 active site 693978000721 metal binding site 1 [ion binding]; metal-binding site 693978000722 putative 5' ssDNA interaction site; other site 693978000723 metal binding site 3; metal-binding site 693978000724 metal binding site 2 [ion binding]; metal-binding site 693978000725 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 693978000726 putative DNA binding site [nucleotide binding]; other site 693978000727 putative metal binding site [ion binding]; other site 693978000728 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 693978000729 active site 693978000730 catalytic site [active] 693978000731 substrate binding site [chemical binding]; other site 693978000732 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 693978000733 active site 693978000734 DNA binding site [nucleotide binding] 693978000735 catalytic site [active] 693978000736 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 693978000737 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 693978000738 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 693978000739 PhoH-like protein; Region: PhoH; pfam02562 693978000740 GTPase Era; Reviewed; Region: era; PRK00089 693978000741 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 693978000742 G1 box; other site 693978000743 GTP/Mg2+ binding site [chemical binding]; other site 693978000744 Switch I region; other site 693978000745 G2 box; other site 693978000746 Switch II region; other site 693978000747 G3 box; other site 693978000748 G4 box; other site 693978000749 G5 box; other site 693978000750 KH domain; Region: KH_2; pfam07650 693978000751 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 693978000752 formate--tetrahydrofolate ligase; Provisional; Region: PRK13505 693978000753 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 693978000754 Potassium binding sites [ion binding]; other site 693978000755 Cesium cation binding sites [ion binding]; other site 693978000756 YhhN-like protein; Region: YhhN; pfam07947 693978000757 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 693978000758 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 693978000759 active site 693978000760 metal binding site [ion binding]; metal-binding site 693978000761 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 693978000762 Uridine phosphorylase [Nucleotide transport and metabolism]; Region: Udp; COG2820 693978000763 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 693978000764 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 693978000765 putative rRNA binding site [nucleotide binding]; other site 693978000766 phosphodiesterase; Provisional; Region: PRK12704 693978000767 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 693978000768 Zn2+ binding site [ion binding]; other site 693978000769 Mg2+ binding site [ion binding]; other site 693978000770 Cell division protein ZapA; Region: ZapA; pfam05164 693978000771 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 693978000772 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 693978000773 ATP binding site [chemical binding]; other site 693978000774 Mg2+ binding site [ion binding]; other site 693978000775 G-X-G motif; other site 693978000776 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 693978000777 anchoring element; other site 693978000778 dimer interface [polypeptide binding]; other site 693978000779 ATP binding site [chemical binding]; other site 693978000780 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 693978000781 active site 693978000782 putative metal-binding site [ion binding]; other site 693978000783 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 693978000784 DNA topoisomerase IV subunit A; Provisional; Region: PRK12758 693978000785 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...; Region: TOP4c; cl00148 693978000786 CAP-like domain; other site 693978000787 active site 693978000788 primary dimer interface [polypeptide binding]; other site 693978000789 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 693978000790 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 693978000791 Zn2+ binding site [ion binding]; other site 693978000792 Mg2+ binding site [ion binding]; other site 693978000793 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 693978000794 synthetase active site [active] 693978000795 NTP binding site [chemical binding]; other site 693978000796 metal binding site [ion binding]; metal-binding site 693978000797 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 693978000798 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 693978000799 pH-dependent sodium/proton antiporter; Reviewed; Region: nhaA; PRK09560 693978000800 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 693978000801 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 693978000802 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 693978000803 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 693978000804 substrate binding site [chemical binding]; other site 693978000805 active site 693978000806 catalytic residues [active] 693978000807 heterodimer interface [polypeptide binding]; other site 693978000808 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 693978000809 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 693978000810 pyridoxal 5'-phosphate binding site [chemical binding]; other site 693978000811 catalytic residue [active] 693978000812 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...; Region: PRAI; cd00405 693978000813 active site 693978000814 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 693978000815 active site 693978000816 ribulose/triose binding site [chemical binding]; other site 693978000817 phosphate binding site [ion binding]; other site 693978000818 substrate (anthranilate) binding pocket [chemical binding]; other site 693978000819 product (indole) binding pocket [chemical binding]; other site 693978000820 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 693978000821 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 693978000822 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 693978000823 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 693978000824 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 693978000825 Glutamine amidotransferase class-I; Region: GATase; pfam00117 693978000826 glutamine binding [chemical binding]; other site 693978000827 catalytic triad [active] 693978000828 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 693978000829 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 693978000830 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 693978000831 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 693978000832 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 693978000833 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 693978000834 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 693978000835 active site 693978000836 dimer interface [polypeptide binding]; other site 693978000837 motif 1; other site 693978000838 motif 2; other site 693978000839 motif 3; other site 693978000840 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 693978000841 anticodon binding site; other site 693978000842 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 693978000843 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 693978000844 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 693978000845 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 693978000846 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 693978000847 23S rRNA binding site [nucleotide binding]; other site 693978000848 L21 binding site [polypeptide binding]; other site 693978000849 L13 binding site [polypeptide binding]; other site 693978000850 3-hydroxybutyryl-CoA dehydrogenase; Validated; Region: PRK05808 693978000851 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 693978000852 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 693978000853 phosphoribosylformylglycinamidine synthase, clade II; Region: FGAM-synthase; TIGR01857 693978000854 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 693978000855 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 693978000856 dimerization interface [polypeptide binding]; other site 693978000857 ATP binding site [chemical binding]; other site 693978000858 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 693978000859 dimerization interface [polypeptide binding]; other site 693978000860 ATP binding site [chemical binding]; other site 693978000861 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 693978000862 putative active site [active] 693978000863 catalytic triad [active] 693978000864 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 693978000865 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 693978000866 ATP binding site [chemical binding]; other site 693978000867 active site 693978000868 substrate binding site [chemical binding]; other site 693978000869 Glutamine phosphoribosylpyrophosphate amidotransferase [Nucleotide transport and metabolism]; Region: PurF; COG0034 693978000870 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 693978000871 active site 693978000872 tetramer interface [polypeptide binding]; other site 693978000873 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 693978000874 active site 693978000875 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 693978000876 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 693978000877 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 693978000878 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 693978000879 putative active site [active] 693978000880 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 693978000881 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 693978000882 dimer interface [polypeptide binding]; other site 693978000883 putative anticodon binding site; other site 693978000884 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 693978000885 motif 1; other site 693978000886 active site 693978000887 motif 2; other site 693978000888 motif 3; other site 693978000889 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 693978000890 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 693978000891 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 693978000892 GDP-binding site [chemical binding]; other site 693978000893 ACT binding site; other site 693978000894 IMP binding site; other site 693978000895 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 693978000896 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 693978000897 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 693978000898 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 693978000899 GTP-binding protein TypA/BipA; Region: TypA_BipA; TIGR01394 693978000900 G1 box; other site 693978000901 putative GEF interaction site [polypeptide binding]; other site 693978000902 GTP/Mg2+ binding site [chemical binding]; other site 693978000903 Switch I region; other site 693978000904 G2 box; other site 693978000905 G3 box; other site 693978000906 Switch II region; other site 693978000907 G4 box; other site 693978000908 G5 box; other site 693978000909 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 693978000910 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 693978000911 Protein of unknown function (DUF465); Region: DUF465; cl01070 693978000912 Uridine kinase [Nucleotide transport and metabolism]; Region: Udk; COG0572 693978000913 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 693978000914 ATP-binding site [chemical binding]; other site 693978000915 Sugar specificity; other site 693978000916 Pyrimidine base specificity; other site 693978000917 Septum formation initiator; Region: DivIC; cl17659 693978000918 GTPase RsgA; Reviewed; Region: PRK00098 693978000919 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 693978000920 RNA binding site [nucleotide binding]; other site 693978000921 homodimer interface [polypeptide binding]; other site 693978000922 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 693978000923 GTPase/Zn-binding domain interface [polypeptide binding]; other site 693978000924 GTP/Mg2+ binding site [chemical binding]; other site 693978000925 G4 box; other site 693978000926 G5 box; other site 693978000927 G1 box; other site 693978000928 Switch I region; other site 693978000929 G2 box; other site 693978000930 G3 box; other site 693978000931 Switch II region; other site 693978000932 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 693978000933 triosephosphate isomerase; Provisional; Region: PRK14567 693978000934 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 693978000935 substrate binding site [chemical binding]; other site 693978000936 dimer interface [polypeptide binding]; other site 693978000937 catalytic triad [active] 693978000938 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 693978000939 Domain of Unknown Function (DUF1599); Region: DUF1599; pfam07659 693978000940 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 693978000941 dimerization interface [polypeptide binding]; other site 693978000942 putative DNA binding site [nucleotide binding]; other site 693978000943 putative Zn2+ binding site [ion binding]; other site 693978000944 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 693978000945 Sodium Bile acid symporter family; Region: SBF; cl17470 693978000946 signal recognition particle protein; Provisional; Region: PRK10867 693978000947 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 693978000948 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 693978000949 P loop; other site 693978000950 GTP binding site [chemical binding]; other site 693978000951 Signal peptide binding domain; Region: SRP_SPB; pfam02978 693978000952 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 693978000953 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 693978000954 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 693978000955 S-adenosylmethionine binding site [chemical binding]; other site 693978000956 hypothetical protein; Validated; Region: PRK02101 693978000957 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 693978000958 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 693978000959 purine monophosphate binding site [chemical binding]; other site 693978000960 dimer interface [polypeptide binding]; other site 693978000961 putative catalytic residues [active] 693978000962 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 693978000963 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 693978000964 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 693978000965 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 693978000966 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 693978000967 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 693978000968 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 693978000969 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 693978000970 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 693978000971 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 693978000972 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec1_hs1; cd05687 693978000973 RNA binding site [nucleotide binding]; other site 693978000974 S1_RPS1_repeat_ec2_hs2: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture...; Region: S1_RPS1_repeat_ec2_hs2; cd04465 693978000975 RNA binding site [nucleotide binding]; other site 693978000976 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...; Region: S1_RPS1_repeat_ec3; cd05688 693978000977 RNA binding site [nucleotide binding]; other site 693978000978 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 693978000979 RNA binding site [nucleotide binding]; other site 693978000980 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 693978000981 RNA binding site [nucleotide binding]; other site 693978000982 S1 RNA binding domain; Region: S1; pfam00575 693978000983 RNA binding site [nucleotide binding]; other site 693978000984 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 693978000985 active site 693978000986 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 693978000987 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 693978000988 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 693978000989 Cytochrome c; Region: Cytochrom_C; cl11414 693978000990 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 693978000991 Outer membrane efflux protein; Region: OEP; pfam02321 693978000992 Outer membrane efflux protein; Region: OEP; pfam02321 693978000993 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 693978000994 HlyD family secretion protein; Region: HlyD_3; pfam13437 693978000995 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 693978000996 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 693978000997 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 693978000998 Enoyl-CoA hydratase/isomerase family; Region: ECH; pfam00378 693978000999 substrate binding site [chemical binding]; other site 693978001000 oxyanion hole (OAH) forming residues; other site 693978001001 trimer interface [polypeptide binding]; other site 693978001002 1,4-dihydroxy-2-naphthoate octaprenyltransferase; Validated; Region: PRK06080 693978001003 UbiA prenyltransferase family; Region: UbiA; pfam01040 693978001004 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 693978001005 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 693978001006 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 693978001007 GyrI-like small molecule binding domain; Region: GyrI-like; cl01368 693978001008 Cna protein B-type domain; Region: Cna_B_2; pfam13715 693978001009 dipeptidyl carboxypeptidase II; Provisional; Region: PRK10280 693978001010 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 693978001011 active site 693978001012 Zn binding site [ion binding]; other site 693978001013 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...; Region: Barstar_like; cl01048 693978001014 RNAase interaction site [polypeptide binding]; other site 693978001015 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 693978001016 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 693978001017 active site 693978001018 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 693978001019 Predicted N6-adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG0116 693978001020 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; cl17173 693978001021 acetyl-CoA synthetase; Provisional; Region: PRK00174 693978001022 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 693978001023 active site 693978001024 CoA binding site [chemical binding]; other site 693978001025 acyl-activating enzyme (AAE) consensus motif; other site 693978001026 AMP binding site [chemical binding]; other site 693978001027 acetate binding site [chemical binding]; other site 693978001028 helicase 45; Provisional; Region: PTZ00424 693978001029 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 693978001030 ATP binding site [chemical binding]; other site 693978001031 Mg++ binding site [ion binding]; other site 693978001032 motif III; other site 693978001033 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 693978001034 nucleotide binding region [chemical binding]; other site 693978001035 ATP-binding site [chemical binding]; other site 693978001036 RNA recognition motif in the DbpA subfamily of prokaryotic DEAD-box rRNA helicases; Region: RRM_DbpA; cd12252 693978001037 RNA binding site [nucleotide binding]; other site 693978001038 YtxH-like protein; Region: YtxH; cl02079 693978001039 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 693978001040 TPR motif; other site 693978001041 binding surface 693978001042 TPR repeat; Region: TPR_11; pfam13414 693978001043 DNA gyrase subunit A; Validated; Region: PRK05560 693978001044 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...; Region: TOP4c; cd00187 693978001045 CAP-like domain; other site 693978001046 active site 693978001047 primary dimer interface [polypeptide binding]; other site 693978001048 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 693978001049 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 693978001050 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 693978001051 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 693978001052 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 693978001053 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 693978001054 Domain of unknown function (DUF4286); Region: DUF4286; pfam14114 693978001055 DNA gyrase subunit B; Validated; Region: gyrB; PRK05644 693978001056 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 693978001057 ATP binding site [chemical binding]; other site 693978001058 Mg2+ binding site [ion binding]; other site 693978001059 G-X-G motif; other site 693978001060 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 693978001061 anchoring element; other site 693978001062 dimer interface [polypeptide binding]; other site 693978001063 ATP binding site [chemical binding]; other site 693978001064 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 693978001065 active site 693978001066 putative metal-binding site [ion binding]; other site 693978001067 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 693978001068 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 693978001069 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 693978001070 dimer interface [polypeptide binding]; other site 693978001071 ssDNA binding site [nucleotide binding]; other site 693978001072 tetramer (dimer of dimers) interface [polypeptide binding]; other site 693978001073 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 693978001074 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 693978001075 active site 693978001076 DNA binding site [nucleotide binding] 693978001077 Int/Topo IB signature motif; other site 693978001078 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 693978001079 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 693978001080 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 693978001081 active site 693978001082 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 693978001083 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 693978001084 Phosphoenolpyruvate carboxylase; Region: PEPcase; cl17418 693978001085 hypothetical protein; Provisional; Region: PRK06753 693978001086 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 693978001087 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 693978001088 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 693978001089 S-adenosylmethionine binding site [chemical binding]; other site 693978001090 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_2; cd06239 693978001091 putative active site [active] 693978001092 Zn binding site [ion binding]; other site 693978001093 Integral membrane protein TerC family; Region: TerC; cl10468 693978001094 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 693978001095 non-specific DNA binding site [nucleotide binding]; other site 693978001096 salt bridge; other site 693978001097 sequence-specific DNA binding site [nucleotide binding]; other site 693978001098 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 693978001099 TAP-like protein; Region: Abhydrolase_4; pfam08386 693978001100 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 693978001101 catalytic residues [active] 693978001102 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 693978001103 metal binding site [ion binding]; metal-binding site 693978001104 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 693978001105 active site 693978001106 catalytic motif [active] 693978001107 Zn binding site [ion binding]; other site 693978001108 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 693978001109 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 693978001110 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 693978001111 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 693978001112 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 693978001113 Coenzyme A binding pocket [chemical binding]; other site 693978001114 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 693978001115 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 693978001116 DNA binding residues [nucleotide binding] 693978001117 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 693978001118 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 693978001119 Probable Catalytic site; other site 693978001120 metal-binding site 693978001121 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 693978001122 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 693978001123 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 693978001124 putative acyl-acceptor binding pocket; other site 693978001125 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 693978001126 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 693978001127 ArsC family; Region: ArsC; pfam03960 693978001128 catalytic residues [active] 693978001129 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 693978001130 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...; Region: HisRS-like_core; cd00773 693978001131 dimer interface [polypeptide binding]; other site 693978001132 motif 1; other site 693978001133 active site 693978001134 motif 2; other site 693978001135 motif 3; other site 693978001136 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 693978001137 anticodon binding site; other site 693978001138 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 693978001139 Isochorismatase family; Region: Isochorismatase; pfam00857 693978001140 catalytic triad [active] 693978001141 metal binding site [ion binding]; metal-binding site 693978001142 conserved cis-peptide bond; other site 693978001143 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 693978001144 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; cl17915 693978001145 active site 693978001146 motif I; other site 693978001147 motif II; other site 693978001148 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 693978001149 active site 693978001150 prephenate dehydratase; Provisional; Region: PRK11898 693978001151 Prephenate dehydratase; Region: PDT; pfam00800 693978001152 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 693978001153 putative L-Phe binding site [chemical binding]; other site 693978001154 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 693978001155 Ligand Binding Site [chemical binding]; other site 693978001156 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 693978001157 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 693978001158 TrkA-C domain; Region: TrkA_C; pfam02080 693978001159 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 693978001160 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 693978001161 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 693978001162 Protein export membrane protein; Region: SecD_SecF; pfam02355 693978001163 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 693978001164 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 693978001165 FeS/SAM binding site; other site 693978001166 HemN C-terminal domain; Region: HemN_C; pfam06969 693978001167 Na(+)/iodide (NIS) and Na(+)/multivitamin (SMVT) cotransporters, and related proteins; solute binding domain; Region: SLC5sbd_NIS-like; cd10326 693978001168 Na binding site [ion binding]; other site 693978001169 transketolase; Reviewed; Region: PRK05899 693978001170 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 693978001171 TPP-binding site [chemical binding]; other site 693978001172 dimer interface [polypeptide binding]; other site 693978001173 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 693978001174 Domain of unknown function (DUF336); Region: DUF336; pfam03928 693978001175 Predicted membrane protein [Function unknown]; Region: COG3059 693978001176 Domain of unknown function (DUF336); Region: DUF336; cl01249 693978001177 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 693978001178 active site 693978001179 homotetramer interface [polypeptide binding]; other site 693978001180 Domain of unknown function (DUF336); Region: DUF336; pfam03928 693978001181 Domain of unknown function (DUF336); Region: DUF336; cl01249 693978001182 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 693978001183 active site 693978001184 homotetramer interface [polypeptide binding]; other site 693978001185 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 693978001186 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 693978001187 PYR/PP interface [polypeptide binding]; other site 693978001188 dimer interface [polypeptide binding]; other site 693978001189 TPP binding site [chemical binding]; other site 693978001190 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 693978001191 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 693978001192 Coenzyme A binding pocket [chemical binding]; other site 693978001193 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 693978001194 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 693978001195 NAD(P) binding site [chemical binding]; other site 693978001196 active site 693978001197 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 693978001198 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 693978001199 ring oligomerisation interface [polypeptide binding]; other site 693978001200 ATP/Mg binding site [chemical binding]; other site 693978001201 stacking interactions; other site 693978001202 hinge regions; other site 693978001203 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 693978001204 oligomerisation interface [polypeptide binding]; other site 693978001205 mobile loop; other site 693978001206 roof hairpin; other site 693978001207 META domain; Region: META; pfam03724 693978001208 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 693978001209 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 693978001210 putative tRNA-binding site [nucleotide binding]; other site 693978001211 B3/4 domain; Region: B3_4; pfam03483 693978001212 tRNA synthetase B5 domain; Region: B5; pfam03484 693978001213 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 693978001214 dimer interface [polypeptide binding]; other site 693978001215 motif 1; other site 693978001216 motif 3; other site 693978001217 motif 2; other site 693978001218 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 693978001219 DNA polymerase III subunit beta; Validated; Region: PRK05643 693978001220 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 693978001221 putative DNA binding surface [nucleotide binding]; other site 693978001222 dimer interface [polypeptide binding]; other site 693978001223 beta-clamp/clamp loader binding surface; other site 693978001224 beta-clamp/translesion DNA polymerase binding surface; other site 693978001225 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 693978001226 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 693978001227 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 693978001228 S-adenosylmethionine binding site [chemical binding]; other site 693978001229 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 693978001230 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 693978001231 active site 693978001232 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 693978001233 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 693978001234 NAD binding site [chemical binding]; other site 693978001235 homodimer interface [polypeptide binding]; other site 693978001236 active site 693978001237 substrate binding site [chemical binding]; other site 693978001238 Predicted pyridoxal phosphate-dependent enzyme apparently involved in regulation of cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WecE; COG0399 693978001239 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 693978001240 inhibitor-cofactor binding pocket; inhibition site 693978001241 pyridoxal 5'-phosphate binding site [chemical binding]; other site 693978001242 catalytic residue [active] 693978001243 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 693978001244 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 693978001245 tetramer interface [polypeptide binding]; other site 693978001246 TPP-binding site [chemical binding]; other site 693978001247 heterodimer interface [polypeptide binding]; other site 693978001248 phosphorylation loop region [posttranslational modification] 693978001249 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 693978001250 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 693978001251 PYR/PP interface [polypeptide binding]; other site 693978001252 dimer interface [polypeptide binding]; other site 693978001253 TPP binding site [chemical binding]; other site 693978001254 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 693978001255 Peptidase S46; Region: Peptidase_S46; pfam10459 693978001256 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 693978001257 Domain of unknown function (DUF4268); Region: DUF4268; pfam14088 693978001258 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 693978001259 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 693978001260 intersubunit interface [polypeptide binding]; other site 693978001261 Adenylosuccinate lyase [Nucleotide transport and metabolism]; Region: PurB; COG0015 693978001262 Adenylsuccinate lyase (ASL)_subgroup 2; Region: Adenylsuccinate_lyase_2; cd03302 693978001263 tetramer interface [polypeptide binding]; other site 693978001264 active site 693978001265 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 693978001266 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 693978001267 active site 693978001268 HIGH motif; other site 693978001269 KMSKS motif; other site 693978001270 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 693978001271 tRNA binding surface [nucleotide binding]; other site 693978001272 anticodon binding site; other site 693978001273 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 693978001274 dimer interface [polypeptide binding]; other site 693978001275 putative tRNA-binding site [nucleotide binding]; other site 693978001276 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 693978001277 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 693978001278 active site 693978001279 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 693978001280 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 693978001281 ATP binding site [chemical binding]; other site 693978001282 Mg++ binding site [ion binding]; other site 693978001283 motif III; other site 693978001284 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 693978001285 nucleotide binding region [chemical binding]; other site 693978001286 ATP-binding site [chemical binding]; other site 693978001287 Uncharacterized oxidoreductases, Fe-dependent alcohol dehydrogenase family [Energy production and conversion]; Region: COG1979 693978001288 Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process; Region: BDH; cd08187 693978001289 dimer interface [polypeptide binding]; other site 693978001290 active site 693978001291 metal binding site [ion binding]; metal-binding site 693978001292 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 693978001293 Short chain acyl-CoA dehydrogenases and eukaryotic short/branched chain acyl-CoA dehydrogenases; Region: SCAD_SBCAD; cd01158 693978001294 FAD binding site [chemical binding]; other site 693978001295 homotetramer interface [polypeptide binding]; other site 693978001296 substrate binding pocket [chemical binding]; other site 693978001297 catalytic base [active] 693978001298 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 693978001299 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 693978001300 acyl-activating enzyme (AAE) consensus motif; other site 693978001301 putative AMP binding site [chemical binding]; other site 693978001302 putative active site [active] 693978001303 putative CoA binding site [chemical binding]; other site 693978001304 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 693978001305 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 693978001306 G1 box; other site 693978001307 putative GEF interaction site [polypeptide binding]; other site 693978001308 GTP/Mg2+ binding site [chemical binding]; other site 693978001309 Switch I region; other site 693978001310 G2 box; other site 693978001311 G3 box; other site 693978001312 Switch II region; other site 693978001313 G4 box; other site 693978001314 G5 box; other site 693978001315 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 693978001316 Ion transport protein; Region: Ion_trans; pfam00520 693978001317 Ion channel; Region: Ion_trans_2; pfam07885 693978001318 zinc-ribbon domain; Region: zf-ribbon_3; pfam13248 693978001319 Uncharacterized conserved protein [Function unknown]; Region: COG0327 693978001320 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 693978001321 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 693978001322 NIF3 (NGG1p interacting factor 3); Region: NIF3; pfam01784 693978001323 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]; Region: COG1579 693978001324 Putative zinc ribbon domain; Region: DUF164; pfam02591 693978001325 potential frameshift: common BLAST hit: gi|313205901|ref|YP_004045078.1| prolyl oligopeptidase family protein 693978001326 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 693978001327 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 693978001328 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 693978001329 Cna protein B-type domain; Region: Cna_B_2; pfam13715 693978001330 recombination protein F; Reviewed; Region: recF; PRK00064 693978001331 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 693978001332 Walker A/P-loop; other site 693978001333 ATP binding site [chemical binding]; other site 693978001334 Q-loop/lid; other site 693978001335 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 693978001336 ABC transporter signature motif; other site 693978001337 Walker B; other site 693978001338 D-loop; other site 693978001339 H-loop/switch region; other site 693978001340 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 693978001341 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 693978001342 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 693978001343 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 693978001344 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 693978001345 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 693978001346 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 693978001347 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 693978001348 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 693978001349 E3 interaction surface; other site 693978001350 lipoyl attachment site [posttranslational modification]; other site 693978001351 e3 binding domain; Region: E3_binding; pfam02817 693978001352 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 693978001353 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 693978001354 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 693978001355 TPP-binding site [chemical binding]; other site 693978001356 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 693978001357 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 693978001358 hydrophobic ligand binding site; other site 693978001359 ATP-dependent Clp protease adaptor protein ClpS; Region: ClpS; pfam02617 693978001360 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 693978001361 Domain of unknown function DUF21; Region: DUF21; pfam01595 693978001362 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 693978001363 Transporter associated domain; Region: CorC_HlyC; smart01091 693978001364 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 693978001365 core domain interface [polypeptide binding]; other site 693978001366 delta subunit interface [polypeptide binding]; other site 693978001367 epsilon subunit interface [polypeptide binding]; other site 693978001368 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 693978001369 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 693978001370 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 693978001371 beta subunit interaction interface [polypeptide binding]; other site 693978001372 Walker A motif; other site 693978001373 ATP binding site [chemical binding]; other site 693978001374 Walker B motif; other site 693978001375 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 693978001376 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 693978001377 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 693978001378 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 693978001379 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 693978001380 ATP synthase A chain; Region: ATP-synt_A; cl00413 693978001381 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 693978001382 Major Facilitator Superfamily; Region: MFS_1; pfam07690 693978001383 putative substrate translocation pore; other site 693978001384 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 693978001385 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 693978001386 active site 693978001387 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 693978001388 Escherichia coli UshA-like family, N-terminal metallophosphatase domain; Region: MPP_UshA_N_like; cd00845 693978001389 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 693978001390 active site 693978001391 metal binding site [ion binding]; metal-binding site 693978001392 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 693978001393 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 693978001394 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 693978001395 DNA binding site [nucleotide binding] 693978001396 active site 693978001397 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 693978001398 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 693978001399 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; cl17244 693978001400 YceG-like family; Region: YceG; pfam02618 693978001401 proteins similar to Escherichia coli yceG; Region: yceG_like; cl17666 693978001402 dimerization interface [polypeptide binding]; other site 693978001403 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 693978001404 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 693978001405 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 693978001406 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 693978001407 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 693978001408 active site 693978001409 HIGH motif; other site 693978001410 nucleotide binding site [chemical binding]; other site 693978001411 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 693978001412 active site 693978001413 KMSKS motif; other site 693978001414 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 693978001415 4-hydroxybenzoate polyprenyltransferase and related prenyltransferases [Coenzyme metabolism]; Region: UbiA; cl00337 693978001416 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 693978001417 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 693978001418 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 693978001419 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 693978001420 FAD binding pocket [chemical binding]; other site 693978001421 FAD binding motif [chemical binding]; other site 693978001422 phosphate binding motif [ion binding]; other site 693978001423 beta-alpha-beta structure motif; other site 693978001424 NAD(p) ribose binding residues [chemical binding]; other site 693978001425 NAD binding pocket [chemical binding]; other site 693978001426 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 693978001427 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 693978001428 catalytic loop [active] 693978001429 iron binding site [ion binding]; other site 693978001430 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 693978001431 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 693978001432 catalytic residues [active] 693978001433 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 693978001434 ABC-ATPase subunit interface; other site 693978001435 dimer interface [polypeptide binding]; other site 693978001436 putative PBP binding regions; other site 693978001437 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 693978001438 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; pfam00988 693978001439 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 693978001440 catalytic site [active] 693978001441 subunit interface [polypeptide binding]; other site 693978001442 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 693978001443 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 693978001444 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 693978001445 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 693978001446 active site 693978001447 homodimer interface [polypeptide binding]; other site 693978001448 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...; Region: CSP_CDS; cd04458 693978001449 DNA-binding site [nucleotide binding]; DNA binding site 693978001450 RNA-binding motif; other site 693978001451 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...; Region: CSP_CDS; cd04458 693978001452 DNA-binding site [nucleotide binding]; DNA binding site 693978001453 RNA-binding motif; other site 693978001454 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 693978001455 DEAD-like helicases superfamily; Region: DEXDc; smart00487 693978001456 ATP binding site [chemical binding]; other site 693978001457 Mg++ binding site [ion binding]; other site 693978001458 motif III; other site 693978001459 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 693978001460 nucleotide binding region [chemical binding]; other site 693978001461 ATP-binding site [chemical binding]; other site 693978001462 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 693978001463 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 693978001464 FeS/SAM binding site; other site 693978001465 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 693978001466 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 693978001467 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 693978001468 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 693978001469 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 693978001470 WYL domain; Region: WYL; pfam13280 693978001471 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 693978001472 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 693978001473 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 693978001474 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 693978001475 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 693978001476 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 693978001477 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 693978001478 putative ion selectivity filter; other site 693978001479 putative pore gating glutamate residue; other site 693978001480 putative H+/Cl- coupling transport residue; other site 693978001481 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 693978001482 Nucleotide-binding domain of human HSPA9 and similar proteins; Region: HSPA9-Ssq1-like_NBD; cd10234 693978001483 nucleotide binding site [chemical binding]; other site 693978001484 NEF interaction site [polypeptide binding]; other site 693978001485 SBD interface [polypeptide binding]; other site 693978001486 Domain of unknown function (DUF955); Region: DUF955; cl01076 693978001487 D-Ala-D-Ala carboxypeptidase 3 (S13) family; Region: Peptidase_S13; cl17429 693978001488 D-alanyl-D-alanine carboxypeptidase, serine-type, PBP4 family; Region: PBP4; TIGR00666 693978001489 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 693978001490 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 693978001491 substrate-cofactor binding pocket; other site 693978001492 pyridoxal 5'-phosphate binding site [chemical binding]; other site 693978001493 catalytic residue [active] 693978001494 Restriction endonuclease [Defense mechanisms]; Region: Mrr; COG1715 693978001495 Mrr N-terminal domain; Region: Mrr_N; pfam14338 693978001496 Restriction endonuclease; Region: Mrr_cat; pfam04471 693978001497 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 693978001498 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 693978001499 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 693978001500 dimer interface [polypeptide binding]; other site 693978001501 pyridoxal 5'-phosphate binding site [chemical binding]; other site 693978001502 catalytic residue [active] 693978001503 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 693978001504 BlaR1 peptidase M56; Region: Peptidase_M56; pfam05569 693978001505 Bacterial protein of unknown function (DUF883); Region: DUF883; cl01888 693978001506 Penicillinase repressor; Region: Pencillinase_R; pfam03965 693978001507 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 693978001508 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 693978001509 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 693978001510 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 693978001511 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 693978001512 polyphosphate kinase 2, PA0141 family; Region: PPK2_P_aer; TIGR03707 693978001513 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 693978001514 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 693978001515 catalytic residues [active] 693978001516 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 693978001517 Cysteine sulfinate desulfinase/cysteine desulfurase and related enzymes [Amino acid transport and metabolism]; Region: NifS; COG1104 693978001518 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 693978001519 catalytic residue [active] 693978001520 PrcB C-terminal; Region: PrcB_C; pfam14343 693978001521 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 693978001522 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 693978001523 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 693978001524 NAD(P) binding site [chemical binding]; other site 693978001525 active site 693978001526 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 693978001527 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 693978001528 substrate binding pocket [chemical binding]; other site 693978001529 chain length determination region; other site 693978001530 substrate-Mg2+ binding site; other site 693978001531 catalytic residues [active] 693978001532 aspartate-rich region 1; other site 693978001533 active site lid residues [active] 693978001534 aspartate-rich region 2; other site 693978001535 Trm112p-like protein; Region: Trm112p; cl01066 693978001536 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 693978001537 thiamine phosphate binding site [chemical binding]; other site 693978001538 active site 693978001539 pyrophosphate binding site [ion binding]; other site 693978001540 Hydrogenase maturation factor [Posttranslational modification, protein turnover, chaperones]; Region: HypE; COG0309 693978001541 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 693978001542 dimerization interface [polypeptide binding]; other site 693978001543 putative ATP binding site [chemical binding]; other site 693978001544 Methyltransferase domain; Region: Methyltransf_23; pfam13489 693978001545 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 693978001546 S-adenosylmethionine binding site [chemical binding]; other site 693978001547 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 693978001548 hypothetical protein; Provisional; Region: PRK08201 693978001549 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_3; cd05680 693978001550 metal binding site [ion binding]; metal-binding site 693978001551 putative dimer interface [polypeptide binding]; other site 693978001552 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 693978001553 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 693978001554 ligand binding site [chemical binding]; other site 693978001555 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 693978001556 S-adenosylmethionine binding site [chemical binding]; other site 693978001557 shikimate kinase; Reviewed; Region: aroK; PRK00131 693978001558 shikimate kinase II; Reviewed; Region: aroL; cl17327 693978001559 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 693978001560 RNA binding surface [nucleotide binding]; other site 693978001561 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 693978001562 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 693978001563 Walker A/P-loop; other site 693978001564 ATP binding site [chemical binding]; other site 693978001565 Q-loop/lid; other site 693978001566 ABC transporter signature motif; other site 693978001567 Walker B; other site 693978001568 D-loop; other site 693978001569 H-loop/switch region; other site 693978001570 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 693978001571 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 693978001572 PhnA protein; Region: PhnA; pfam03831 693978001573 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 693978001574 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 693978001575 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 693978001576 catalytic residue [active] 693978001577 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 693978001578 Peptidase Gluzincin family (thermolysin-like proteinases, TLPs) includes peptidases M1, M2, M3, M4, M13, M32 and M36 (fungalysins); Region: GluZincin; cl14813 693978001579 Zn binding site [ion binding]; other site 693978001580 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 693978001581 nudix motif; other site 693978001582 Penicillinase repressor; Region: Pencillinase_R; cl17580 693978001583 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 693978001584 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 693978001585 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 693978001586 Phosphate transporter family; Region: PHO4; pfam01384 693978001587 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 693978001588 5-methyltetrahydropteroyltriglutamate--homocysteine S-methyltransferase; Provisional; Region: PRK05222 693978001589 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 693978001590 THF binding site; other site 693978001591 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 693978001592 substrate binding site [chemical binding]; other site 693978001593 THF binding site; other site 693978001594 zinc-binding site [ion binding]; other site 693978001595 The C-terminal domain of uncharacterized bacterial proteins; Region: Bvu_2165_C_like; cd12843 693978001596 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 693978001597 Surface antigen; Region: Bac_surface_Ag; pfam01103 693978001598 3-deoxy-D-manno-octulosonic acid (KDO) 8-phosphate synthase [Cell envelope biogenesis, outer membrane]; Region: KdsA; cl17225 693978001599 Chorismate mutase type II; Region: CM_2; smart00830 693978001600 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14970 693978001601 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 693978001602 Walker A motif; other site 693978001603 ATP binding site [chemical binding]; other site 693978001604 DNA polymerase III subunit delta'; Validated; Region: PRK08485 693978001605 Walker B motif; other site 693978001606 arginine finger; other site 693978001607 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 693978001608 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 693978001609 dimer interface [polypeptide binding]; other site 693978001610 substrate binding site [chemical binding]; other site 693978001611 metal binding sites [ion binding]; metal-binding site 693978001612 hypothetical protein; Reviewed; Region: PRK00024 693978001613 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 693978001614 MPN+ (JAMM) motif; other site 693978001615 Zinc-binding site [ion binding]; other site 693978001616 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 693978001617 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 693978001618 Walker A/P-loop; other site 693978001619 ATP binding site [chemical binding]; other site 693978001620 Q-loop/lid; other site 693978001621 ABC transporter signature motif; other site 693978001622 Walker B; other site 693978001623 D-loop; other site 693978001624 H-loop/switch region; other site 693978001625 Putative effector of murein hydrolase LrgA [General function prediction only]; Region: COG1380 693978001626 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 693978001627 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 693978001628 dihydropteroate synthase; Region: DHPS; TIGR01496 693978001629 substrate binding pocket [chemical binding]; other site 693978001630 dimer interface [polypeptide binding]; other site 693978001631 inhibitor binding site; inhibition site 693978001632 cytidylate kinase; Provisional; Region: cmk; PRK00023 693978001633 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 693978001634 CMP-binding site; other site 693978001635 The sites determining sugar specificity; other site 693978001636 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 693978001637 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 693978001638 tetramerization interface [polypeptide binding]; other site 693978001639 active site 693978001640 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 693978001641 IHF dimer interface [polypeptide binding]; other site 693978001642 IHF - DNA interface [nucleotide binding]; other site 693978001643 Protein of unknown function (DUF2891); Region: DUF2891; pfam11199 693978001644 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 693978001645 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 693978001646 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 693978001647 Uncharacterized ACR, COG1678; Region: DUF179; pfam02622 693978001648 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 693978001649 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 693978001650 metal binding site [ion binding]; metal-binding site 693978001651 dimer interface [polypeptide binding]; other site 693978001652 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 693978001653 putative catalytic site [active] 693978001654 putative metal binding site [ion binding]; other site 693978001655 putative phosphate binding site [ion binding]; other site 693978001656 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 693978001657 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 693978001658 Tetramer interface [polypeptide binding]; other site 693978001659 active site 693978001660 FMN-binding site [chemical binding]; other site 693978001661 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 693978001662 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 693978001663 catalytic residues [active] 693978001664 Uncharacterized conserved protein [Function unknown]; Region: COG3339 693978001665 lipoyl synthase; Provisional; Region: PRK05481 693978001666 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 693978001667 FeS/SAM binding site; other site 693978001668 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 693978001669 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 693978001670 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 693978001671 DNA binding residues [nucleotide binding] 693978001672 Ribosome-binding factor A; Region: RBFA; pfam02033 693978001673 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 693978001674 FtsX-like permease family; Region: FtsX; pfam02687 693978001675 Endonuclease I; Region: Endonuclease_1; pfam04231 693978001676 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 693978001677 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 693978001678 Alkaline phosphatase homologues; Region: alkPPc; smart00098 693978001679 active site 693978001680 dimer interface [polypeptide binding]; other site 693978001681 competence damage-inducible protein A; Provisional; Region: PRK00549 693978001682 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 693978001683 putative MPT binding site; other site 693978001684 Competence-damaged protein; Region: CinA; pfam02464 693978001685 Predicted metalloendopeptidase [Posttranslational modification, protein turnover, chaperones]; Region: PepO; COG3590 693978001686 Peptidase family M13 includes neprilysin, endothelin-converting enzyme I; Region: M13; cd08662 693978001687 active site 693978001688 Zn binding site [ion binding]; other site 693978001689 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 693978001690 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 693978001691 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 693978001692 active site 693978001693 catalytic site [active] 693978001694 substrate binding site [chemical binding]; other site 693978001695 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]; Region: MhpD; COG0179 693978001696 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 693978001697 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 693978001698 Ligand Binding Site [chemical binding]; other site 693978001699 putative sulfurtransferase DndC; Region: DNA_S_dndC; TIGR03183 693978001700 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 693978001701 Active Sites [active] 693978001702 DNA sulfur modification protein DndD; Region: DNA_S_dndD; TIGR03185 693978001703 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 693978001704 Walker A/P-loop; other site 693978001705 ATP binding site [chemical binding]; other site 693978001706 Domain of unknown function (DUF1832); Region: DUF1832; cl07463 693978001707 AAA-like domain; Region: AAA_10; pfam12846 693978001708 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 693978001709 Walker A motif; other site 693978001710 ATP binding site [chemical binding]; other site 693978001711 Walker B motif; other site 693978001712 Bacterial proteins similar to Porphyromonas gingivalis HmuY; Region: HmuY; cd12105 693978001713 TonB-dependent heme/hemoglobin receptor family protein; Region: TonB-hemin; TIGR01785 693978001714 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 693978001715 N-terminal plug; other site 693978001716 ligand-binding site [chemical binding]; other site 693978001717 exopolyphosphatase; Region: exo_poly_only; TIGR03706 693978001718 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 693978001719 polyphosphate kinase; Provisional; Region: PRK05443 693978001720 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 693978001721 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 693978001722 Catalytic C-terminal domain, first repeat, of Escherichia coli polyphosphate kinase 1 and similar proteins; Region: PLDc_EcPPK1_C1_like; cd09164 693978001723 domain interface [polypeptide binding]; other site 693978001724 active site 693978001725 catalytic site [active] 693978001726 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 693978001727 putative active site [active] 693978001728 catalytic site [active] 693978001729 Domain of unknown function (DUF4190); Region: DUF4190; pfam13828 693978001730 Protein of unknown function (DUF2752); Region: DUF2752; pfam10825 693978001731 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 693978001732 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 693978001733 amidase catalytic site [active] 693978001734 Zn binding residues [ion binding]; other site 693978001735 substrate binding site [chemical binding]; other site 693978001736 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 693978001737 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...; Region: PLPDE_IV; cl00224 693978001738 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 693978001739 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 693978001740 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 693978001741 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 693978001742 NAD(P) binding site [chemical binding]; other site 693978001743 active site 693978001744 PGAP1-like protein; Region: PGAP1; pfam07819 693978001745 acyl-CoA esterase; Provisional; Region: PRK10673 693978001746 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...; Region: PNPsynthase; cd00003 693978001747 active site 693978001748 hydrophilic channel; other site 693978001749 dimerization interface [polypeptide binding]; other site 693978001750 catalytic residues [active] 693978001751 active site lid [active] 693978001752 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 693978001753 Mechanosensitive ion channel; Region: MS_channel; pfam00924 693978001754 Protein of unknown function (DUF456); Region: DUF456; pfam04306 693978001755 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 693978001756 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 693978001757 active site 693978001758 Zn binding site [ion binding]; other site 693978001759 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 693978001760 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 693978001761 ligand binding site [chemical binding]; other site 693978001762 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 693978001763 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 693978001764 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 693978001765 ligand binding site [chemical binding]; other site 693978001766 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 693978001767 catalytic center binding site [active] 693978001768 ATP binding site [chemical binding]; other site 693978001769 Signal peptide peptidase A (SppA) 67K type, a serine protease, has catalytic Ser-Lys dyad; Region: S49_SppA_67K_type; cd07018 693978001770 tandem repeat interface [polypeptide binding]; other site 693978001771 oligomer interface [polypeptide binding]; other site 693978001772 active site residues [active] 693978001773 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 693978001774 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 693978001775 tandem repeat interface [polypeptide binding]; other site 693978001776 oligomer interface [polypeptide binding]; other site 693978001777 active site residues [active] 693978001778 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 693978001779 dimerization interface [polypeptide binding]; other site 693978001780 putative tRNAtyr binding site [nucleotide binding]; other site 693978001781 putative active site [active] 693978001782 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 693978001783 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 693978001784 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 693978001785 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 693978001786 nucleotide binding site/active site [active] 693978001787 HIT family signature motif; other site 693978001788 catalytic residue [active] 693978001789 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 693978001790 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 693978001791 Walker A motif; other site 693978001792 ATP binding site [chemical binding]; other site 693978001793 Walker B motif; other site 693978001794 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 693978001795 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 693978001796 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 693978001797 catalytic residues [active] 693978001798 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 693978001799 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 693978001800 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 693978001801 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 693978001802 RNA binding site [nucleotide binding]; other site 693978001803 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 693978001804 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 693978001805 alpha subunit interface [polypeptide binding]; other site 693978001806 TPP binding site [chemical binding]; other site 693978001807 heterodimer interface [polypeptide binding]; other site 693978001808 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 693978001809 recA bacterial DNA recombination protein; Region: RecA; cl17211 693978001810 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 693978001811 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; pfam00044 693978001812 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 693978001813 6-phosphofructokinase; Provisional; Region: PRK03202 693978001814 6-phosphofructokinase; Region: PFKA_ATP; TIGR02482 693978001815 active site 693978001816 ADP/pyrophosphate binding site [chemical binding]; other site 693978001817 dimerization interface [polypeptide binding]; other site 693978001818 allosteric effector site; other site 693978001819 fructose-1,6-bisphosphate binding site; other site 693978001820 Cna protein B-type domain; Region: Cna_B_2; pfam13715 693978001821 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 693978001822 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; cl17244 693978001823 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 693978001824 trigger factor; Region: tig; TIGR00115 693978001825 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 693978001826 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 693978001827 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 693978001828 putative active site [active] 693978001829 putative catalytic site [active] 693978001830 putative DNA binding site [nucleotide binding]; other site 693978001831 putative phosphate binding site [ion binding]; other site 693978001832 metal binding site A [ion binding]; metal-binding site 693978001833 putative AP binding site [nucleotide binding]; other site 693978001834 putative metal binding site B [ion binding]; other site 693978001835 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 693978001836 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 693978001837 FMN binding site [chemical binding]; other site 693978001838 active site 693978001839 catalytic residues [active] 693978001840 substrate binding site [chemical binding]; other site 693978001841 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 693978001842 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 693978001843 thymidylate synthase; Reviewed; Region: thyA; PRK01827 693978001844 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 693978001845 dimerization interface [polypeptide binding]; other site 693978001846 active site 693978001847 Peptidase M1 family Aminopeptidase N; Region: M1_APN_4; cd09603 693978001848 Peptidase family M1; Region: Peptidase_M1; pfam01433 693978001849 Zn binding site [ion binding]; other site 693978001850 HEAT repeats; Region: HEAT_2; pfam13646 693978001851 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 693978001852 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 693978001853 CoA binding domain; Region: CoA_binding; smart00881 693978001854 CoA-ligase; Region: Ligase_CoA; pfam00549 693978001855 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 693978001856 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 693978001857 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 693978001858 trimer interface [polypeptide binding]; other site 693978001859 active site 693978001860 UDP-GlcNAc binding site [chemical binding]; other site 693978001861 lipid binding site [chemical binding]; lipid-binding site 693978001862 elongation factor P; Validated; Region: PRK00529 693978001863 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 693978001864 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 693978001865 RNA binding site [nucleotide binding]; other site 693978001866 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 693978001867 RNA binding site [nucleotide binding]; other site 693978001868 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 693978001869 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 693978001870 active site 693978001871 bifunctional UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase/(3R)-hydroxymyristoyl-[acyl-carrier-protein] dehydratase; Reviewed; Region: PRK13188 693978001872 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 693978001873 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 693978001874 HD superfamily phosphohydrolases [General function prediction only]; Region: COG1078 693978001875 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 693978001876 Zn2+ binding site [ion binding]; other site 693978001877 Mg2+ binding site [ion binding]; other site 693978001878 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 693978001879 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 693978001880 active site 693978001881 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 693978001882 metal binding site [ion binding]; metal-binding site 693978001883 active site 693978001884 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 693978001885 aspartate kinase; Region: asp_kinases; TIGR00657 693978001886 nucleotide binding site [chemical binding]; other site 693978001887 substrate binding site [chemical binding]; other site 693978001888 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ACT14924; Region: LPLAT_ACT14924-like; cd07986 693978001889 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 693978001890 putative acyl-acceptor binding pocket; other site 693978001891 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 693978001892 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 693978001893 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 693978001894 active site 693978001895 catalytic site [active] 693978001896 substrate binding site [chemical binding]; other site 693978001897 DNA-directed DNA polymerase III (polc); Region: polc; TIGR00594 693978001898 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 693978001899 active site 693978001900 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 693978001901 generic binding surface II; other site 693978001902 generic binding surface I; other site 693978001903 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 693978001904 16S/18S rRNA binding site [nucleotide binding]; other site 693978001905 S13e-L30e interaction site [polypeptide binding]; other site 693978001906 25S rRNA binding site [nucleotide binding]; other site 693978001907 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 693978001908 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 693978001909 RNase E interface [polypeptide binding]; other site 693978001910 trimer interface [polypeptide binding]; other site 693978001911 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 693978001912 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 693978001913 RNase E interface [polypeptide binding]; other site 693978001914 trimer interface [polypeptide binding]; other site 693978001915 active site 693978001916 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 693978001917 putative nucleic acid binding region [nucleotide binding]; other site 693978001918 G-X-X-G motif; other site 693978001919 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 693978001920 RNA binding site [nucleotide binding]; other site 693978001921 domain interface; other site 693978001922 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 693978001923 malate dehydrogenase; Reviewed; Region: PRK06223 693978001924 L-lactate dehydrogenase-like malate dehydrogenase proteins; Region: LDH-like_MDH; cd01339 693978001925 dimer interface [polypeptide binding]; other site 693978001926 NAD(P) binding site [chemical binding]; other site 693978001927 tetramer (dimer of dimers) interface [polypeptide binding]; other site 693978001928 substrate binding site [chemical binding]; other site 693978001929 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 693978001930 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 693978001931 ATP binding site [chemical binding]; other site 693978001932 putative Mg++ binding site [ion binding]; other site 693978001933 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 693978001934 nucleotide binding region [chemical binding]; other site 693978001935 ATP-binding site [chemical binding]; other site 693978001936 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 693978001937 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 693978001938 putative active site [active] 693978001939 substrate binding site [chemical binding]; other site 693978001940 putative cosubstrate binding site; other site 693978001941 catalytic site [active] 693978001942 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 693978001943 substrate binding site [chemical binding]; other site 693978001944 glutamate racemase; Provisional; Region: PRK00865 693978001945 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 693978001946 dimer interface [polypeptide binding]; other site 693978001947 active site 693978001948 aspartate-rich active site metal binding site; other site 693978001949 allosteric magnesium binding site [ion binding]; other site 693978001950 Schiff base residues; other site 693978001951 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 693978001952 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 693978001953 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 693978001954 RimM N-terminal domain; Region: RimM; pfam01782 693978001955 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 693978001956 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 693978001957 FeS/SAM binding site; other site 693978001958 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 693978001959 Bacterial sugar transferase; Region: Bac_transf; pfam02397 693978001960 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 693978001961 Permease; Region: Permease; pfam02405 693978001962 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 693978001963 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 693978001964 Walker A/P-loop; other site 693978001965 ATP binding site [chemical binding]; other site 693978001966 Q-loop/lid; other site 693978001967 ABC transporter signature motif; other site 693978001968 Walker B; other site 693978001969 D-loop; other site 693978001970 H-loop/switch region; other site 693978001971 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 693978001972 Peptidase family M48; Region: Peptidase_M48; pfam01435 693978001973 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 693978001974 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 693978001975 acyl-activating enzyme (AAE) consensus motif; other site 693978001976 putative AMP binding site [chemical binding]; other site 693978001977 putative active site [active] 693978001978 putative CoA binding site [chemical binding]; other site 693978001979 diphosphomevalonate decarboxylase; Region: mevDPdecarb; TIGR01240 693978001980 diphosphomevalonate decarboxylase; Region: PLN02407 693978001981 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 693978001982 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 693978001983 putative metal binding site [ion binding]; other site 693978001984 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 693978001985 ATP-grasp domain; Region: ATP-grasp; pfam02222 693978001986 AIR carboxylase; Region: AIRC; pfam00731 693978001987 putative hydrolase; Provisional; Region: PRK11460 693978001988 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 693978001989 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 693978001990 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 693978001991 active site 693978001992 HIGH motif; other site 693978001993 dimer interface [polypeptide binding]; other site 693978001994 KMSKS motif; other site 693978001995 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 693978001996 PGAP1-like protein; Region: PGAP1; pfam07819 693978001997 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 693978001998 Uncharacterized conserved protein [Function unknown]; Region: COG2968 693978001999 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 693978002000 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 693978002001 RNA/DNA hybrid binding site [nucleotide binding]; other site 693978002002 active site 693978002003 replicative DNA helicase; Region: DnaB; TIGR00665 693978002004 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 693978002005 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 693978002006 Walker A motif; other site 693978002007 ATP binding site [chemical binding]; other site 693978002008 Walker B motif; other site 693978002009 DNA binding loops [nucleotide binding] 693978002010 purine nucleoside phosphorylase; Provisional; Region: PRK08202 693978002011 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 693978002012 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 693978002013 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 693978002014 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 693978002015 dimer interface [polypeptide binding]; other site 693978002016 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 693978002017 active site 693978002018 Fe binding site [ion binding]; other site 693978002019 fumarylacetoacetase; Region: PLN02856 693978002020 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 693978002021 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 693978002022 Protein of unknown function (DUF2490); Region: DUF2490; pfam10677 693978002023 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 693978002024 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 693978002025 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 693978002026 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 693978002027 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 693978002028 ABC-type uncharacterized transport system, ATPase component [General function prediction only]; Region: COG4152 693978002029 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 693978002030 Walker A/P-loop; other site 693978002031 ATP binding site [chemical binding]; other site 693978002032 Q-loop/lid; other site 693978002033 ABC transporter signature motif; other site 693978002034 Walker B; other site 693978002035 D-loop; other site 693978002036 H-loop/switch region; other site 693978002037 Domain of unknown function (DUF4162); Region: DUF4162; pfam13732 693978002038 chaperone protein DnaJ; Provisional; Region: PRK14289 693978002039 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 693978002040 HSP70 interaction site [polypeptide binding]; other site 693978002041 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 693978002042 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 693978002043 dimer interface [polypeptide binding]; other site 693978002044 GrpE; Region: GrpE; pfam01025 693978002045 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 693978002046 dimer interface [polypeptide binding]; other site 693978002047 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 693978002048 manganese transport protein MntH; Reviewed; Region: PRK00701 693978002049 Natural resistance-associated macrophage protein; Region: Nramp; pfam01566 693978002050 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 693978002051 prolyl-tRNA synthetase; Provisional; Region: PRK08661 693978002052 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...; Region: ProRS_core_arch_euk; cd00778 693978002053 dimer interface [polypeptide binding]; other site 693978002054 motif 1; other site 693978002055 active site 693978002056 motif 2; other site 693978002057 motif 3; other site 693978002058 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 693978002059 anticodon binding site; other site 693978002060 zinc-binding site [ion binding]; other site 693978002061 Bacterial protein of unknown function (DUF937); Region: DUF937; pfam06078 693978002062 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 693978002063 Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]; Region: Rpe; COG0036 693978002064 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 693978002065 substrate binding site [chemical binding]; other site 693978002066 hexamer interface [polypeptide binding]; other site 693978002067 metal binding site [ion binding]; metal-binding site 693978002068 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 693978002069 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 693978002070 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 693978002071 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 693978002072 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 693978002073 DNA binding residues [nucleotide binding] 693978002074 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 693978002075 catalytic residues [active] 693978002076 dimer interface [polypeptide binding]; other site 693978002077 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 693978002078 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 693978002079 Ligand binding site; other site 693978002080 oligomer interface; other site 693978002081 Bacterial SH3 domain; Region: SH3_3; cl17532 693978002082 aspartate aminotransferase; Provisional; Region: PRK05764 693978002083 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 693978002084 pyridoxal 5'-phosphate binding site [chemical binding]; other site 693978002085 homodimer interface [polypeptide binding]; other site 693978002086 catalytic residue [active] 693978002087 phosphoglucomutase-2-like protein; Provisional; Region: PTZ00150 693978002088 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 693978002089 active site 693978002090 substrate binding site [chemical binding]; other site 693978002091 metal binding site [ion binding]; metal-binding site 693978002092 Protein of unknown function (DUF2807); Region: DUF2807; pfam10988 693978002093 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 693978002094 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 693978002095 Ligand binding site; other site 693978002096 Putative Catalytic site; other site 693978002097 DXD motif; other site 693978002098 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 693978002099 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 693978002100 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 693978002101 active site 693978002102 HIGH motif; other site 693978002103 nucleotide binding site [chemical binding]; other site 693978002104 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 693978002105 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 693978002106 active site 693978002107 KMSKS motif; other site 693978002108 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 693978002109 tRNA binding surface [nucleotide binding]; other site 693978002110 anticodon binding site; other site 693978002111 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 693978002112 Protein of unknown function (DUF4241); Region: DUF4241; pfam14025 693978002113 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 693978002114 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 693978002115 substrate binding site [chemical binding]; other site 693978002116 ATP binding site [chemical binding]; other site 693978002117 Acyl-protein synthetase, LuxE; Region: LuxE; pfam04443 693978002118 Vacuole effluxer Atg22 like; Region: ATG22; pfam11700 693978002119 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 693978002120 acetyl-CoA C-acetyltransferase; Region: PLN02644 693978002121 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 693978002122 dimer interface [polypeptide binding]; other site 693978002123 active site 693978002124 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 693978002125 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 693978002126 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 693978002127 active site 693978002128 Delta(1)-pyrroline-5-carboxylate dehydrogenase, ALDH families 4 and 17; Region: ALDH_F4-17_P5CDH; cd07123 693978002129 delta-1-pyrroline-5-carboxylate dehydrogenase, group 1; Region: D1pyr5carbox1; TIGR01236 693978002130 Glutamate binding site [chemical binding]; other site 693978002131 NAD binding site [chemical binding]; other site 693978002132 catalytic residues [active] 693978002133 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 693978002134 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 693978002135 acyl-activating enzyme (AAE) consensus motif; other site 693978002136 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 693978002137 AMP binding site [chemical binding]; other site 693978002138 active site 693978002139 CoA binding site [chemical binding]; other site 693978002140 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 693978002141 di-heme enzyme, MXAN_0977 family; Region: MXAN_0977_Heme2; TIGR04039 693978002142 AZL_007920/MXAN_0976 family protein; Region: AZL_007920_fam; TIGR04052 693978002143 glycine dehydrogenase; Provisional; Region: PRK05367 693978002144 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 693978002145 tetramer interface [polypeptide binding]; other site 693978002146 pyridoxal 5'-phosphate binding site [chemical binding]; other site 693978002147 catalytic residue [active] 693978002148 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 693978002149 tetramer interface [polypeptide binding]; other site 693978002150 pyridoxal 5'-phosphate binding site [chemical binding]; other site 693978002151 catalytic residue [active] 693978002152 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 693978002153 NADH(P)-binding; Region: NAD_binding_10; pfam13460 693978002154 NAD binding site [chemical binding]; other site 693978002155 active site 693978002156 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 693978002157 dimer interface [polypeptide binding]; other site 693978002158 catalytic triad [active] 693978002159 peroxidatic and resolving cysteines [active] 693978002160 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 693978002161 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 693978002162 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 693978002163 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 693978002164 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 693978002165 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 693978002166 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 693978002167 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 693978002168 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 693978002169 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 693978002170 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 693978002171 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 693978002172 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 693978002173 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 693978002174 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 693978002175 catalytic loop [active] 693978002176 iron binding site [ion binding]; other site 693978002177 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 693978002178 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 693978002179 SLBB domain; Region: SLBB; pfam10531 693978002180 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; pfam10589 693978002181 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 693978002182 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 693978002183 putative dimer interface [polypeptide binding]; other site 693978002184 [2Fe-2S] cluster binding site [ion binding]; other site 693978002185 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 693978002186 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 693978002187 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; pfam00329 693978002188 NADH ubiquinone oxidoreductase, 20 Kd subunit; Region: Oxidored_q6; cl17194 693978002189 NADH-ubiquinone/plastoquinone oxidoreductase, chain 3; Region: Oxidored_q4; cl00535 693978002190 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 693978002191 Coenzyme A binding pocket [chemical binding]; other site 693978002192 Putative neutral zinc metallopeptidase; Region: Zn_peptidase_2; pfam04298 693978002193 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 693978002194 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 693978002195 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 693978002196 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 693978002197 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 693978002198 Repair protein; Region: Repair_PSII; pfam04536 693978002199 Repair protein; Region: Repair_PSII; cl01535 693978002200 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 693978002201 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 693978002202 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 693978002203 folate binding site [chemical binding]; other site 693978002204 NADP+ binding site [chemical binding]; other site 693978002205 ribosomal protein S12 methylthiotransferase RimO; Region: TIGR01125 693978002206 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 693978002207 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 693978002208 FeS/SAM binding site; other site 693978002209 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 693978002210 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 693978002211 substrate binding site; other site 693978002212 tetramer interface; other site 693978002213 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 693978002214 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 693978002215 NAD binding site [chemical binding]; other site 693978002216 substrate binding site [chemical binding]; other site 693978002217 homodimer interface [polypeptide binding]; other site 693978002218 active site 693978002219 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: dTDP_sugar_isom; pfam00908 693978002220 Bacterial sugar transferase; Region: Bac_transf; cl00939 693978002221 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 693978002222 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 693978002223 inhibitor-cofactor binding pocket; inhibition site 693978002224 pyridoxal 5'-phosphate binding site [chemical binding]; other site 693978002225 catalytic residue [active] 693978002226 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 693978002227 classical (c) SDRs; Region: SDR_c; cd05233 693978002228 NAD(P) binding site [chemical binding]; other site 693978002229 active site 693978002230 Acyl carrier protein [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcpP; COG0236 693978002231 FkbH-like domain; Region: FkbH; TIGR01686 693978002232 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 693978002233 active site 693978002234 motif I; other site 693978002235 motif II; other site 693978002236 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 693978002237 dimer interface [polypeptide binding]; other site 693978002238 substrate binding site [chemical binding]; other site 693978002239 metal binding site [ion binding]; metal-binding site 693978002240 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 693978002241 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 693978002242 dimer interface [polypeptide binding]; other site 693978002243 active site 693978002244 CoA binding pocket [chemical binding]; other site 693978002245 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 693978002246 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 693978002247 putative trimer interface [polypeptide binding]; other site 693978002248 putative CoA binding site [chemical binding]; other site 693978002249 Bacterial sugar transferase; Region: Bac_transf; pfam02397 693978002250 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 693978002251 putative ADP-binding pocket [chemical binding]; other site 693978002252 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 693978002253 exosortase A system-associated amidotransferase 1; Region: eps_aminotran_1; TIGR03108 693978002254 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 693978002255 active site 693978002256 dimer interface [polypeptide binding]; other site 693978002257 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 693978002258 Ligand Binding Site [chemical binding]; other site 693978002259 Molecular Tunnel; other site 693978002260 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 693978002261 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 693978002262 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 693978002263 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_d; cd04196 693978002264 Probable Catalytic site; other site 693978002265 twin-arg-translocated uncharacterized repeat protein; Region: RR_plus_rpt_1; TIGR03808 693978002266 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 693978002267 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 693978002268 active site 693978002269 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 693978002270 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 693978002271 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 693978002272 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 693978002273 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 693978002274 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 693978002275 NAD binding site [chemical binding]; other site 693978002276 substrate binding site [chemical binding]; other site 693978002277 homodimer interface [polypeptide binding]; other site 693978002278 active site 693978002279 tyrosine kinase; Provisional; Region: PRK11519 693978002280 Chain length determinant protein; Region: Wzz; pfam02706 693978002281 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 693978002282 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cd01983 693978002283 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 693978002284 SLBB domain; Region: SLBB; pfam10531 693978002285 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 693978002286 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 693978002287 NAD(P) binding site [chemical binding]; other site 693978002288 homodimer interface [polypeptide binding]; other site 693978002289 substrate binding site [chemical binding]; other site 693978002290 active site 693978002291 RecX family; Region: RecX; pfam02631 693978002292 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 693978002293 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 693978002294 dimer interface [polypeptide binding]; other site 693978002295 active site 693978002296 glycine-pyridoxal phosphate binding site [chemical binding]; other site 693978002297 folate binding site [chemical binding]; other site 693978002298 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 693978002299 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 693978002300 active site 693978002301 dimer interface [polypeptide binding]; other site 693978002302 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 693978002303 dimer interface [polypeptide binding]; other site 693978002304 active site 693978002305 5,10-methylene-tetrahydrofolate dehydrogenase/Methenyl tetrahydrofolate cyclohydrolase [Coenzyme metabolism]; Region: FolD; COG0190 693978002306 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 693978002307 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 693978002308 homodimer interface [polypeptide binding]; other site 693978002309 NADP binding site [chemical binding]; other site 693978002310 substrate binding site [chemical binding]; other site 693978002311 chaperone protein HchA; Provisional; Region: PRK04155 693978002312 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 693978002313 conserved cys residue [active] 693978002314 short chain dehydrogenase; Provisional; Region: PRK06179 693978002315 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 693978002316 NADP binding site [chemical binding]; other site 693978002317 active site 693978002318 steroid binding site; other site 693978002319 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 693978002320 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK02427 693978002321 hinge; other site 693978002322 active site 693978002323 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 693978002324 homodimer interface [polypeptide binding]; other site 693978002325 metal binding site [ion binding]; metal-binding site 693978002326 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 693978002327 UDP-N-acetylglucosamine diphosphorylase/glucosamine-1-phosphate N-acetyltransferase; Region: alt_bact_glmU; TIGR03991 693978002328 Sugar nucleotidyl transferase; Region: NTP_transf_4; pfam13562 693978002329 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 693978002330 putative trimer interface [polypeptide binding]; other site 693978002331 putative CoA binding site [chemical binding]; other site 693978002332 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 693978002333 MiaB-like tRNA modifying enzyme; Region: MiaB-like-C; TIGR01579 693978002334 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 693978002335 FeS/SAM binding site; other site 693978002336 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 693978002337 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 693978002338 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 693978002339 active site 693978002340 HIGH motif; other site 693978002341 KMSK motif region; other site 693978002342 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 693978002343 tRNA binding surface [nucleotide binding]; other site 693978002344 anticodon binding site; other site 693978002345 starch binding outer membrane protein SusD; Region: SusD; cl17845 693978002346 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 693978002347 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 693978002348 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; cl17244 693978002349 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 693978002350 RNA/DNA hybrid binding site [nucleotide binding]; other site 693978002351 active site 693978002352 membrane protein insertase; Provisional; Region: PRK01318 693978002353 60Kd inner membrane protein; Region: 60KD_IMP; pfam02096 693978002354 CTP synthetase; Validated; Region: pyrG; PRK05380 693978002355 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 693978002356 Catalytic site [active] 693978002357 active site 693978002358 UTP binding site [chemical binding]; other site 693978002359 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 693978002360 active site 693978002361 putative oxyanion hole; other site 693978002362 catalytic triad [active] 693978002363 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 693978002364 RecA/RadA recombinase [DNA replication, recombination, and repair]; Region: RecA; COG0468 693978002365 hexamer interface [polypeptide binding]; other site 693978002366 Walker A motif; other site 693978002367 ATP binding site [chemical binding]; other site 693978002368 Walker B motif; other site 693978002369 succinate dehydrogenase/fumarate reductase iron-sulfur subunit; Validated; Region: PRK07570 693978002370 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 693978002371 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07573 693978002372 L-aspartate oxidase; Provisional; Region: PRK06175 693978002373 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 693978002374 succinate dehydrogenase (or fumarate reductase) cytochrome b subunit, b558 family; Region: sdhC_b558_fam; TIGR02046 693978002375 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 693978002376 putative Iron-sulfur protein interface [polypeptide binding]; other site 693978002377 proximal heme binding site [chemical binding]; other site 693978002378 distal heme binding site [chemical binding]; other site 693978002379 putative dimer interface [polypeptide binding]; other site 693978002380 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 693978002381 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 693978002382 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 693978002383 putative catalytic site [active] 693978002384 putative metal binding site [ion binding]; other site 693978002385 putative phosphate binding site [ion binding]; other site 693978002386 Peptidase associated domain: C-terminal domain of M14 N/E carboxypeptidase; putative folding, regulation, or interaction domain; Region: Peptidase_M14NE-CP-C_like; cl17499 693978002387 CRISPR/Cas system-associated protein Cas2; Region: Cas2_I_II_III; cl11442 693978002388 CRISPR/Cas system-associated protein Cas1; Region: Cas1_I-II-III; cl00656 693978002389 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 693978002390 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 693978002391 CRISPR-associated protein Cas9/Csn1, subtype II/NMEMI; Region: cas_Csn1; TIGR01865 693978002392 putative enoyl-[acyl-carrier-protein] reductase II; Region: enACPred_II; TIGR03151 693978002393 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 693978002394 FMN binding site [chemical binding]; other site 693978002395 substrate binding site [chemical binding]; other site 693978002396 putative catalytic residue [active] 693978002397 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 693978002398 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 693978002399 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 693978002400 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 693978002401 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 693978002402 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 693978002403 Protein of unknown function (DUF2480); Region: DUF2480; pfam10652 693978002404 Bacterial protein of unknown function (DUF937); Region: DUF937; pfam06078 693978002405 Deoxyhypusine synthase; Region: DS; cl00826 693978002406 deoxyhypusine synthase; Region: dhys; TIGR00321 693978002407 Deoxyhypusine synthase; Region: DS; cl00826 693978002408 Predicted membrane protein [Function unknown]; Region: COG4083; cl15694 693978002409 exosortase F-associated protein; Region: flavo_near_exo; TIGR04127 693978002410 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 693978002411 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 693978002412 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 693978002413 Walker A motif; other site 693978002414 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 693978002415 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 693978002416 Bacterial SH3 domain; Region: SH3_3; pfam08239 693978002417 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 693978002418 BON domain; Region: BON; cl02771 693978002419 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 693978002420 active site 693978002421 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 693978002422 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; cl17244 693978002423 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 693978002424 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 693978002425 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 693978002426 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 693978002427 catalytic residues [active] 693978002428 Haem-binding domain; Region: Haem_bd; pfam14376 693978002429 Bacterial Ig-like domain; Region: Big_5; pfam13205 693978002430 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 693978002431 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 693978002432 substrate binding site [chemical binding]; other site 693978002433 oxyanion hole (OAH) forming residues; other site 693978002434 trimer interface [polypeptide binding]; other site 693978002435 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 693978002436 active site 693978002437 catalytic residues [active] 693978002438 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 693978002439 Protein of unknown function DUF72; Region: DUF72; pfam01904 693978002440 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 693978002441 Beta-lactamase; Region: Beta-lactamase; pfam00144 693978002442 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK09102 693978002443 Class I ribonucleotide reductase; Region: RNR_I; cd01679 693978002444 active site 693978002445 dimer interface [polypeptide binding]; other site 693978002446 catalytic residues [active] 693978002447 effector binding site; other site 693978002448 R2 peptide binding site; other site 693978002449 ribonucleotide-diphosphate reductase subunit beta; Provisional; Region: nrdF2; PRK13966 693978002450 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 693978002451 dimer interface [polypeptide binding]; other site 693978002452 putative radical transfer pathway; other site 693978002453 diiron center [ion binding]; other site 693978002454 tyrosyl radical; other site 693978002455 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 693978002456 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 693978002457 active site 693978002458 glutamate dehydrogenase; Provisional; Region: PRK09414 693978002459 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 693978002460 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 693978002461 NAD(P) binding site [chemical binding]; other site 693978002462 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 693978002463 DNA protecting protein DprA; Region: dprA; TIGR00732 693978002464 superfamily containing globins and truncated hemoglobins; Region: globin_like; cl00280 693978002465 heme-binding site [chemical binding]; other site 693978002466 Cna protein B-type domain; Region: Cna_B_2; pfam13715 693978002467 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 693978002468 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 693978002469 putative DNA binding site [nucleotide binding]; other site 693978002470 putative Zn2+ binding site [ion binding]; other site 693978002471 AsnC family; Region: AsnC_trans_reg; pfam01037 693978002472 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 693978002473 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 693978002474 starch binding outer membrane protein SusD; Region: SusD; cd08977 693978002475 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 693978002476 RuvA N terminal domain; Region: RuvA_N; pfam01330 693978002477 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 693978002478 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 693978002479 active site 693978002480 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 693978002481 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 693978002482 putative active site [active] 693978002483 putative metal binding site [ion binding]; other site 693978002484 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 693978002485 Serine proteases of the peptidase family S9A [Amino acid transport and metabolism]; Region: COG1505 693978002486 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 693978002487 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 693978002488 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 693978002489 catalytic triad [active] 693978002490 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 693978002491 endonuclease III; Region: ENDO3c; smart00478 693978002492 minor groove reading motif; other site 693978002493 helix-hairpin-helix signature motif; other site 693978002494 substrate binding pocket [chemical binding]; other site 693978002495 active site 693978002496 elongation factor Ts; Provisional; Region: tsf; PRK09377 693978002497 UBA/TS-N domain; Region: UBA; pfam00627 693978002498 Elongation factor TS; Region: EF_TS; pfam00889 693978002499 Elongation factor TS; Region: EF_TS; pfam00889 693978002500 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 693978002501 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 693978002502 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 693978002503 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 693978002504 HIGH motif; other site 693978002505 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 693978002506 active site 693978002507 KMSKS motif; other site 693978002508 GH3 auxin-responsive promoter; Region: GH3; pfam03321 693978002509 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 693978002510 Clp amino terminal domain; Region: Clp_N; pfam02861 693978002511 Clp amino terminal domain; Region: Clp_N; pfam02861 693978002512 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 693978002513 Walker A motif; other site 693978002514 ATP binding site [chemical binding]; other site 693978002515 Walker B motif; other site 693978002516 arginine finger; other site 693978002517 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 693978002518 Walker A motif; other site 693978002519 ATP binding site [chemical binding]; other site 693978002520 Walker B motif; other site 693978002521 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 693978002522 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 693978002523 putative active site [active] 693978002524 catalytic residue [active] 693978002525 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 693978002526 Acyltransferase family; Region: Acyl_transf_3; pfam01757 693978002527 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 693978002528 active site clefts [active] 693978002529 zinc binding site [ion binding]; other site 693978002530 dimer interface [polypeptide binding]; other site 693978002531 Serine acetyltransferase [Amino acid transport and metabolism]; Region: CysE; COG1045 693978002532 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 693978002533 trimer interface [polypeptide binding]; other site 693978002534 active site 693978002535 substrate binding site [chemical binding]; other site 693978002536 CoA binding site [chemical binding]; other site 693978002537 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 693978002538 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 693978002539 putative ADP-binding pocket [chemical binding]; other site 693978002540 Predicted membrane protein involved in D-alanine export [Cell envelope biogenesis, outer membrane]; Region: DltB; COG1696 693978002541 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 693978002542 active site 693978002543 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 693978002544 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 693978002545 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 693978002546 putative ADP-binding pocket [chemical binding]; other site 693978002547 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 693978002548 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 693978002549 dihydroorotase; Reviewed; Region: PRK09236 693978002550 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 693978002551 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 693978002552 active site 693978002553 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 693978002554 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 693978002555 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 693978002556 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 693978002557 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 693978002558 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 693978002559 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 693978002560 short chain dehydrogenase; Provisional; Region: PRK07677 693978002561 NAD(P) binding site [chemical binding]; other site 693978002562 substrate binding site [chemical binding]; other site 693978002563 homotetramer interface [polypeptide binding]; other site 693978002564 active site 693978002565 homodimer interface [polypeptide binding]; other site 693978002566 single-stranded-DNA-specific exonuclease RecJ; Region: recJ; TIGR00644 693978002567 DHH family; Region: DHH; pfam01368 693978002568 DHHA1 domain; Region: DHHA1; pfam02272 693978002569 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 693978002570 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 693978002571 active site 693978002572 (T/H)XGH motif; other site 693978002573 Domain of unknown function (DUF3817); Region: DUF3817; cl14844 693978002574 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 693978002575 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 693978002576 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 693978002577 active site 693978002578 metal binding site [ion binding]; metal-binding site 693978002579 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 693978002580 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 693978002581 homotrimer interaction site [polypeptide binding]; other site 693978002582 putative active site [active] 693978002583 enolase; Provisional; Region: eno; PRK00077 693978002584 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 693978002585 dimer interface [polypeptide binding]; other site 693978002586 metal binding site [ion binding]; metal-binding site 693978002587 substrate binding pocket [chemical binding]; other site 693978002588 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 693978002589 dimer interface [polypeptide binding]; other site 693978002590 Citrate synthase; Region: Citrate_synt; pfam00285 693978002591 active site 693978002592 citrylCoA binding site [chemical binding]; other site 693978002593 NADH binding [chemical binding]; other site 693978002594 cationic pore residues; other site 693978002595 oxalacetate/citrate binding site [chemical binding]; other site 693978002596 coenzyme A binding site [chemical binding]; other site 693978002597 catalytic triad [active] 693978002598 Domain of unknown function (DUF4369); Region: DUF4369; pfam14289 693978002599 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 693978002600 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 693978002601 catalytic residues [active] 693978002602 Amidinotransferase; Region: Amidinotransf; cl12043 693978002603 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 693978002604 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 693978002605 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 693978002606 alphaNTD - beta interaction site [polypeptide binding]; other site 693978002607 alphaNTD homodimer interface [polypeptide binding]; other site 693978002608 alphaNTD - beta' interaction site [polypeptide binding]; other site 693978002609 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 693978002610 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 693978002611 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 693978002612 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 693978002613 RNA binding surface [nucleotide binding]; other site 693978002614 30S ribosomal protein S11; Validated; Region: PRK05309 693978002615 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 693978002616 30S ribosomal protein S13; Region: bact_S13; TIGR03631 693978002617 Ribosomal protein L36; Region: Ribosomal_L36; pfam00444 693978002618 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 693978002619 rRNA binding site [nucleotide binding]; other site 693978002620 predicted 30S ribosome binding site; other site 693978002621 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 693978002622 SecY translocase; Region: SecY; pfam00344 693978002623 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 693978002624 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 693978002625 23S rRNA binding site [nucleotide binding]; other site 693978002626 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 693978002627 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 693978002628 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 693978002629 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 693978002630 5S rRNA interface [nucleotide binding]; other site 693978002631 L27 interface [polypeptide binding]; other site 693978002632 23S rRNA interface [nucleotide binding]; other site 693978002633 L5 interface [polypeptide binding]; other site 693978002634 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 693978002635 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 693978002636 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 693978002637 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 693978002638 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 693978002639 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 693978002640 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 693978002641 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 693978002642 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 693978002643 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 693978002644 RNA binding site [nucleotide binding]; other site 693978002645 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 693978002646 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 693978002647 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 693978002648 23S rRNA interface [nucleotide binding]; other site 693978002649 putative translocon interaction site; other site 693978002650 signal recognition particle (SRP54) interaction site; other site 693978002651 L23 interface [polypeptide binding]; other site 693978002652 trigger factor interaction site; other site 693978002653 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 693978002654 23S rRNA interface [nucleotide binding]; other site 693978002655 5S rRNA interface [nucleotide binding]; other site 693978002656 putative antibiotic binding site [chemical binding]; other site 693978002657 L25 interface [polypeptide binding]; other site 693978002658 L27 interface [polypeptide binding]; other site 693978002659 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 693978002660 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 693978002661 G-X-X-G motif; other site 693978002662 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 693978002663 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 693978002664 putative translocon binding site; other site 693978002665 protein-rRNA interface [nucleotide binding]; other site 693978002666 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 693978002667 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 693978002668 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 693978002669 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 693978002670 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 693978002671 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 693978002672 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 693978002673 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 693978002674 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 693978002675 Maf-like protein; Region: Maf; pfam02545 693978002676 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 693978002677 active site 693978002678 dimer interface [polypeptide binding]; other site 693978002679 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 693978002680 PIN (PilT N terminus) domain: Superfamily; Region: PIN_SF; cl14812 693978002681 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 693978002682 Glycoprotease family; Region: Peptidase_M22; pfam00814 693978002683 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 693978002684 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 693978002685 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 693978002686 Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]; Region: HybF; COG0375 693978002687 Hydrogenase expression/synthesis hypA family; Region: HypA; pfam01155 693978002688 UreD urease accessory protein; Region: UreD; pfam01774 693978002689 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cd00882 693978002690 G1 box; other site 693978002691 GTP/Mg2+ binding site [chemical binding]; other site 693978002692 G2 box; other site 693978002693 Switch I region; other site 693978002694 G3 box; other site 693978002695 Switch II region; other site 693978002696 G4 box; other site 693978002697 G5 box; other site 693978002698 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 693978002699 UreF; Region: UreF; pfam01730 693978002700 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 693978002701 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 693978002702 dimer interface [polypeptide binding]; other site 693978002703 catalytic residues [active] 693978002704 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 693978002705 subunit interactions [polypeptide binding]; other site 693978002706 urease subunit alpha; Reviewed; Region: ureC; PRK13207 693978002707 active site 693978002708 flap region; other site 693978002709 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 693978002710 gamma-beta subunit interface [polypeptide binding]; other site 693978002711 alpha-beta subunit interface [polypeptide binding]; other site 693978002712 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 693978002713 alpha-gamma subunit interface [polypeptide binding]; other site 693978002714 beta-gamma subunit interface [polypeptide binding]; other site 693978002715 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 693978002716 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 693978002717 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 693978002718 N-terminal plug; other site 693978002719 ligand-binding site [chemical binding]; other site 693978002720 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 693978002721 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 693978002722 Walker A/P-loop; other site 693978002723 ATP binding site [chemical binding]; other site 693978002724 Q-loop/lid; other site 693978002725 ABC transporter signature motif; other site 693978002726 Walker B; other site 693978002727 D-loop; other site 693978002728 H-loop/switch region; other site 693978002729 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 693978002730 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 693978002731 ABC-ATPase subunit interface; other site 693978002732 dimer interface [polypeptide binding]; other site 693978002733 putative PBP binding regions; other site 693978002734 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 693978002735 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 693978002736 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 693978002737 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 693978002738 active site 693978002739 intersubunit interface [polypeptide binding]; other site 693978002740 zinc binding site [ion binding]; other site 693978002741 Na+ binding site [ion binding]; other site 693978002742 NAD kinase [Coenzyme metabolism]; Region: nadF; cl01255 693978002743 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 693978002744 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 693978002745 TonB-dependent Receptor Plug Domain; Region: Plug; cl08461 693978002746 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 693978002747 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 693978002748 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 693978002749 flavoprotein, HI0933 family; Region: TIGR00275 693978002750 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 693978002751 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 693978002752 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 693978002753 cytochrome c nitrite reductase subunit c552; Provisional; Region: nrfA; PRK11125 693978002754 cytochrome c nitrate reductase, small subunit; Region: cytochr_NrfH; TIGR03153 693978002755 cytochrome c-type protein NapC; Provisional; Region: PRK10617; cl17554 693978002756 Domain of unknown function (DUF4104); Region: DUF4104; pfam13372 693978002757 Peptidase S8 family domain in Kp43 proteases; Region: Peptidases_S8_Kp43_protease; cd04842 693978002758 active site 693978002759 Bacterial pre-peptidase C-terminal domain; Region: PPC; pfam04151 693978002760 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 693978002761 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 693978002762 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 693978002763 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 693978002764 Walker A/P-loop; other site 693978002765 ATP binding site [chemical binding]; other site 693978002766 Q-loop/lid; other site 693978002767 ABC transporter signature motif; other site 693978002768 Walker B; other site 693978002769 D-loop; other site 693978002770 H-loop/switch region; other site 693978002771 Protein of unknown function (DUF3276); Region: DUF3276; pfam11680 693978002772 bacillithiol biosynthesis deacetylase BshB1; Region: thiol_BshB1; TIGR04001 693978002773 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 693978002774 binding surface 693978002775 TPR motif; other site 693978002776 PBP superfamily domain; Region: PBP_like_2; pfam12849 693978002777 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 693978002778 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 693978002779 Biopolymer transport protein ExbD/TolR; Region: ExbD; cl00537 693978002780 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 693978002781 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 693978002782 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 693978002783 active site 693978002784 HIGH motif; other site 693978002785 nucleotide binding site [chemical binding]; other site 693978002786 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 693978002787 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 693978002788 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 693978002789 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 693978002790 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 693978002791 active site 693978002792 KMSKS motif; other site 693978002793 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 693978002794 tRNA binding surface [nucleotide binding]; other site 693978002795 Anticodon-binding domain of tRNA; Region: Anticodon_1; pfam08264 693978002796 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 693978002797 active site 693978002798 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 693978002799 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 693978002800 protein binding site [polypeptide binding]; other site 693978002801 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 693978002802 protein binding site [polypeptide binding]; other site 693978002803 Collagenase and related proteases [Posttranslational modification, protein turnover, chaperones]; Region: COG0826 693978002804 Peptidase family U32; Region: Peptidase_U32; pfam01136 693978002805 4Fe-4S single cluster domain; Region: Fer4_15; pfam13459 693978002806 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 693978002807 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 693978002808 seryl-tRNA synthetase; Provisional; Region: PRK05431 693978002809 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 693978002810 Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme...; Region: SerRS_core; cd00770 693978002811 dimer interface [polypeptide binding]; other site 693978002812 active site 693978002813 motif 1; other site 693978002814 motif 2; other site 693978002815 motif 3; other site 693978002816 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 693978002817 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 693978002818 Ligand Binding Site [chemical binding]; other site 693978002819 TilS substrate C-terminal domain; Region: TilS_C; smart00977 693978002820 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 693978002821 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 693978002822 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 693978002823 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 693978002824 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 693978002825 Salmonella virulence plasmid 65kDa B protein; Region: SpvB; pfam03534 693978002826 Family description; Region: VCBS; pfam13517 693978002827 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 693978002828 Serum amyloid A protein; Region: SAA; cl02506 693978002829 Mycobacterium tuberculosis succinate-semialdehyde dehydrogenase 1-like; Region: ALDH_SSADH1_GabD1; cd07100 693978002830 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 693978002831 NAD(P) binding site [chemical binding]; other site 693978002832 catalytic residues [active] 693978002833 Pyruvate kinase [Carbohydrate transport and metabolism]; Region: PykF; COG0469 693978002834 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; cl17342 693978002835 active site 693978002836 domain interfaces; other site 693978002837 dsRNA-specific ribonuclease [Transcription]; Region: Rnc; COG0571 693978002838 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 693978002839 dimerization interface [polypeptide binding]; other site 693978002840 active site 693978002841 metal binding site [ion binding]; metal-binding site 693978002842 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 693978002843 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 693978002844 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 693978002845 dimer interface [polypeptide binding]; other site 693978002846 active site 693978002847 acyl carrier protein; Provisional; Region: acpP; PRK00982 693978002848 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 693978002849 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 693978002850 Cysteine-rich domain; Region: CCG; pfam02754 693978002851 Cysteine-rich domain; Region: CCG; pfam02754 693978002852 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 693978002853 The HCP family of iron-sulfur proteins includes hybrid cluster protein (HCP), acetyl-CoA synthase (ACS), and carbon monoxide dehydrogenase (CODH), all of which contain [Fe4-S4] metal clusters at their active sites. These proteins have a conserved...; Region: HCP_like; cl14655 693978002854 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 693978002855 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 693978002856 mce related protein; Region: MCE; pfam02470 693978002857 SurA N-terminal domain; Region: SurA_N_3; cl07813 693978002858 PPIC-type PPIASE domain; Region: Rotamase_2; pfam13145 693978002859 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 693978002860 Cupin domain; Region: Cupin_2; cl17218 693978002861 Putative lipopolysaccharide-modifying enzyme; Region: CAP10; smart00672 693978002862 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 693978002863 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 693978002864 The Sema domain, a protein interacting module, of semaphorins and plexins; Region: Sema; cl15693 693978002865 ornithine aminotransferase; Region: Orn_aminotrans; TIGR01885 693978002866 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 693978002867 inhibitor-cofactor binding pocket; inhibition site 693978002868 pyridoxal 5'-phosphate binding site [chemical binding]; other site 693978002869 catalytic residue [active] 693978002870 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 693978002871 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 693978002872 ATP-grasp domain; Region: ATP-grasp_4; cl17255 693978002873 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 693978002874 acetyl-CoA carboxylase, biotin carboxyl carrier protein; Region: BCCP; TIGR00531 693978002875 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 693978002876 carboxyltransferase (CT) interaction site; other site 693978002877 biotinylation site [posttranslational modification]; other site 693978002878 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 693978002879 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 693978002880 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 693978002881 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 693978002882 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 693978002883 Lumazine binding domain; Region: Lum_binding; pfam00677 693978002884 Lumazine binding domain; Region: Lum_binding; pfam00677 693978002885 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 693978002886 HAMP domain; Region: HAMP; pfam00672 693978002887 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 693978002888 dimer interface [polypeptide binding]; other site 693978002889 phosphorylation site [posttranslational modification] 693978002890 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 693978002891 ATP binding site [chemical binding]; other site 693978002892 Mg2+ binding site [ion binding]; other site 693978002893 G-X-G motif; other site 693978002894 Predicted O-methyltransferase [General function prediction only]; Region: COG4123 693978002895 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 693978002896 S-adenosylmethionine binding site [chemical binding]; other site 693978002897 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 693978002898 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 693978002899 Walker A/P-loop; other site 693978002900 ATP binding site [chemical binding]; other site 693978002901 Q-loop/lid; other site 693978002902 ABC transporter signature motif; other site 693978002903 Walker B; other site 693978002904 D-loop; other site 693978002905 H-loop/switch region; other site 693978002906 Ribosomal protein L34; Region: Ribosomal_L34; cl00370 693978002907 Exopolyphosphatase-related proteins [General function prediction only]; Region: COG0618 693978002908 DHH family; Region: DHH; pfam01368 693978002909 DHHA1 domain; Region: DHHA1; pfam02272 693978002910 Cna protein B-type domain; Region: Cna_B_2; pfam13715 693978002911 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 693978002912 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; cl17244 693978002913 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 693978002914 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 693978002915 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; cl17244 693978002916 Starch-binding associating with outer membrane; Region: SusD-like_2; pfam12771 693978002917 starch binding outer membrane protein SusD; Region: SusD; cd08977 693978002918 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 693978002919 putative active site [active] 693978002920 putative metal binding site [ion binding]; other site 693978002921 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 693978002922 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 693978002923 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 693978002924 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 693978002925 HlyD family secretion protein; Region: HlyD_3; pfam13437 693978002926 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 693978002927 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 693978002928 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 693978002929 Uncharacterized protein conserved in bacteria containing a pentein-type domain [Function unknown]; Region: COG4874 693978002930 Amidinotransferase; Region: Amidinotransf; pfam02274 693978002931 diaminopimelate decarboxylase; Region: lysA; TIGR01048 693978002932 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 693978002933 active site 693978002934 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 693978002935 substrate binding site [chemical binding]; other site 693978002936 catalytic residues [active] 693978002937 dimer interface [polypeptide binding]; other site 693978002938 P-loop ATPase protein family; Region: ATP_bind_2; cl15794 693978002939 peptide chain release factor 1; Validated; Region: prfA; PRK00591 693978002940 PCRF domain; Region: PCRF; pfam03462 693978002941 RF-1 domain; Region: RF-1; pfam00472 693978002942 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 693978002943 hypothetical protein; Validated; Region: PRK00110 693978002944 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 693978002945 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 693978002946 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 693978002947 ligand binding site [chemical binding]; other site 693978002948 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 693978002949 SmpB-tmRNA interface; other site 693978002950 ABC transporter ATP-binding protein; Provisional; Region: PRK15064 693978002951 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 693978002952 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 693978002953 ABC transporter; Region: ABC_tran_2; pfam12848 693978002954 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 693978002955 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 693978002956 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 693978002957 Family of unknown function (DUF490); Region: DUF490; pfam04357 693978002958 Surface antigen; Region: Bac_surface_Ag; pfam01103 693978002959 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 693978002960 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 693978002961 human 17-beta-hydroxysteroid dehydrogenase XI-like, classical (c) SDRs; Region: 17beta-HSDXI-like_SDR_c; cd05339 693978002962 putative NAD(P) binding site [chemical binding]; other site 693978002963 homodimer interface [polypeptide binding]; other site 693978002964 active site 693978002965 substrate binding site [chemical binding]; other site 693978002966 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 693978002967 Bacillus subtilis aldehyde dehydrogenase ywdH-like; Region: ALDH_YwdH-P39616; cd07136 693978002968 NAD(P) binding site [chemical binding]; other site 693978002969 catalytic residues [active] 693978002970 cell division protein FtsZ; Validated; Region: PRK09330 693978002971 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 693978002972 nucleotide binding site [chemical binding]; other site 693978002973 SulA interaction site; other site 693978002974 cell division protein FtsA; Region: ftsA; TIGR01174 693978002975 Cell division protein FtsA; Region: FtsA; smart00842 693978002976 Cell division protein FtsA; Region: FtsA; pfam14450 693978002977 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 693978002978 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 693978002979 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 693978002980 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 693978002981 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 693978002982 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 693978002983 active site 693978002984 homodimer interface [polypeptide binding]; other site 693978002985 Cell cycle protein; Region: FTSW_RODA_SPOVE; cl00511 693978002986 UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]; Region: MurD; COG0771 693978002987 Alanine dehydrogenase/PNT, C-terminal domain; Region: AlaDh_PNT_C; smart01002 693978002988 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 693978002989 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 693978002990 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 693978002991 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 693978002992 Mg++ binding site [ion binding]; other site 693978002993 putative catalytic motif [active] 693978002994 putative substrate binding site [chemical binding]; other site 693978002995 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 693978002996 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 693978002997 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 693978002998 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 693978002999 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 693978003000 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 693978003001 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 693978003002 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 693978003003 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 693978003004 MraW methylase family; Region: Methyltransf_5; cl17771 693978003005 cell division protein MraZ; Reviewed; Region: PRK00326 693978003006 MraZ protein; Region: MraZ; pfam02381 693978003007 MraZ protein; Region: MraZ; pfam02381 693978003008 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 693978003009 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 693978003010 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 693978003011 G1 box; other site 693978003012 GTP/Mg2+ binding site [chemical binding]; other site 693978003013 Switch I region; other site 693978003014 G2 box; other site 693978003015 G3 box; other site 693978003016 Switch II region; other site 693978003017 G4 box; other site 693978003018 G5 box; other site 693978003019 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 693978003020 Coenzyme A binding pocket [chemical binding]; other site 693978003021 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 693978003022 methionine sulfoxide reductase A; Provisional; Region: PRK14054 693978003023 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 693978003024 Found in ATP-dependent protease La (LON); Region: LON; smart00464 693978003025 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 693978003026 Walker A motif; other site 693978003027 ATP binding site [chemical binding]; other site 693978003028 Walker B motif; other site 693978003029 arginine finger; other site 693978003030 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 693978003031 GLPGLI family protein; Region: GLPGLI; TIGR01200 693978003032 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 693978003033 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 693978003034 RmlD substrate binding domain; Region: RmlD_sub_bind; pfam04321 693978003035 NADP binding site [chemical binding]; other site 693978003036 active site 693978003037 putative substrate binding site [chemical binding]; other site 693978003038 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 693978003039 active site 693978003040 periplasmic chaperone; Provisional; Region: PRK10780 693978003041 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 693978003042 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 693978003043 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 693978003044 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 693978003045 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 693978003046 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 693978003047 Surface antigen; Region: Bac_surface_Ag; pfam01103 693978003048 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 693978003049 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 693978003050 catalytic residue [active] 693978003051 putative FPP diphosphate binding site; other site 693978003052 putative FPP binding hydrophobic cleft; other site 693978003053 dimer interface [polypeptide binding]; other site 693978003054 putative IPP diphosphate binding site; other site 693978003055 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 693978003056 Domain of unknown function (DUF389); Region: DUF389; pfam04087 693978003057 phosphatidylserine decarboxylase; Provisional; Region: PRK05305 693978003058 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 693978003059 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 693978003060 Uncharacterized ACR, YkgG family COG1556; Region: DUF162; pfam02589 693978003061 SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]; Region: TrmA; COG2265 693978003062 TRAM domain; Region: TRAM; pfam01938 693978003063 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 693978003064 S-adenosylmethionine binding site [chemical binding]; other site 693978003065 aspartate-semialdehyde dehydrogenase; Provisional; Region: PRK14874 693978003066 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 693978003067 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; uncharacterized family 2; Region: EEP-2; cd09084 693978003068 putative catalytic site [active] 693978003069 putative metal binding site [ion binding]; other site 693978003070 putative phosphate binding site [ion binding]; other site 693978003071 Membrane associated serine protease [Amino acid transport and metabolism]; Region: COG0705 693978003072 DNA mismatch repair enzyme (predicted ATPase) [DNA replication, recombination, and repair]; Region: MutL; COG0323 693978003073 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 693978003074 ATP binding site [chemical binding]; other site 693978003075 Mg2+ binding site [ion binding]; other site 693978003076 G-X-G motif; other site 693978003077 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 693978003078 ATP binding site [chemical binding]; other site 693978003079 MutL C terminal dimerisation domain; Region: MutL_C; smart00853 693978003080 polycystic kidney disease I (PKD) domain; similar to other cell-surface modules, with an IG-like fold; domain probably functions as a ligand binding site in protein-protein or protein-carbohydrate interactions; a single instance of the repeat is...; Region: PKD; cd00146 693978003081 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 693978003082 methionine sulfoxide reductase B; Provisional; Region: PRK00222 693978003083 SelR domain; Region: SelR; pfam01641 693978003084 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 693978003085 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 693978003086 non-specific DNA binding site [nucleotide binding]; other site 693978003087 salt bridge; other site 693978003088 sequence-specific DNA binding site [nucleotide binding]; other site 693978003089 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 693978003090 nucleoside/Zn binding site; other site 693978003091 dimer interface [polypeptide binding]; other site 693978003092 catalytic motif [active] 693978003093 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 693978003094 E-class dimer interface [polypeptide binding]; other site 693978003095 P-class dimer interface [polypeptide binding]; other site 693978003096 active site 693978003097 Cu2+ binding site [ion binding]; other site 693978003098 Zn2+ binding site [ion binding]; other site 693978003099 2-succinyl-5-enolpyruvyl-6-hydroxy-3-cyclohexene-1- carboxylic-acid synthase; Region: menD; TIGR00173 693978003100 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 693978003101 dimer interface [polypeptide binding]; other site 693978003102 tetramer interface [polypeptide binding]; other site 693978003103 PYR/PP interface [polypeptide binding]; other site 693978003104 TPP binding site [chemical binding]; other site 693978003105 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 693978003106 TPP-binding site; other site 693978003107 Peptidase S46; Region: Peptidase_S46; pfam10459 693978003108 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 693978003109 Protein of unknown function (DUF3078); Region: DUF3078; pfam11276 693978003110 Phosphoglycerate kinase; Region: PGK; pfam00162 693978003111 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 693978003112 substrate binding site [chemical binding]; other site 693978003113 hinge regions; other site 693978003114 ADP binding site [chemical binding]; other site 693978003115 catalytic site [active] 693978003116 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 693978003117 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 693978003118 active site 693978003119 purine riboside binding site [chemical binding]; other site 693978003120 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 693978003121 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 693978003122 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 693978003123 starch binding outer membrane protein SusD; Region: SusD; cd08977 693978003124 Zinc peptidases M18, M20, M28, and M42; Region: Zinc_peptidase_like; cl14876 693978003125 PA: Protease-associated (PA) domain. The PA domain is an insert domain in a diverse fraction of proteases. The significance of the PA domain to many of the proteins in which it is inserted is undetermined. It may be a protein-protein interaction domain; Region: PA; cl08238 693978003126 M28 Zn-Peptidases; Region: M28_like_4; cd08015 693978003127 Peptidase family M28; Region: Peptidase_M28; pfam04389 693978003128 metal binding site [ion binding]; metal-binding site 693978003129 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 693978003130 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 693978003131 Methyltransferase domain; Region: Methyltransf_23; pfam13489 693978003132 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 693978003133 S-adenosylmethionine binding site [chemical binding]; other site 693978003134 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 693978003135 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 693978003136 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 693978003137 Uncharacterized protein family UPF0054; Region: UPF0054; pfam02130 693978003138 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 693978003139 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 693978003140 active site 693978003141 nucleophile elbow; other site 693978003142 Outer membrane protein/protective antigen OMA87 [Cell envelope biogenesis, outer membrane]; Region: COG4775 693978003143 Mevalonate kinase [Lipid metabolism]; Region: ERG12; COG1577 693978003144 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 693978003145 Phosphoenolpyruvate carboxykinase; Region: PEPCK_ATP; pfam01293 693978003146 active site 693978003147 substrate-binding site [chemical binding]; other site 693978003148 metal-binding site [ion binding] 693978003149 ATP binding site [chemical binding]; other site 693978003150 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 693978003151 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 693978003152 E3 interaction surface; other site 693978003153 lipoyl attachment site [posttranslational modification]; other site 693978003154 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 693978003155 lipoyl-biotinyl attachment site [posttranslational modification]; other site 693978003156 HlyD family secretion protein; Region: HlyD_3; pfam13437 693978003157 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 693978003158 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 693978003159 phosphoglucosamine mutase; Region: Arch_GlmM; TIGR03990 693978003160 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 693978003161 active site 693978003162 substrate binding site [chemical binding]; other site 693978003163 metal binding site [ion binding]; metal-binding site 693978003164 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 693978003165 binding surface 693978003166 TPR motif; other site 693978003167 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 693978003168 TPR motif; other site 693978003169 binding surface 693978003170 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 693978003171 binding surface 693978003172 TPR motif; other site 693978003173 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 693978003174 binding surface 693978003175 TPR motif; other site 693978003176 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 693978003177 binding surface 693978003178 TPR motif; other site 693978003179 TPR repeat; Region: TPR_11; pfam13414 693978003180 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 693978003181 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 693978003182 Domain of unknown function DUF20; Region: UPF0118; pfam01594 693978003183 para-aminobenzoate synthase component I; Validated; Region: PRK07093 693978003184 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...; Region: PLPDE_IV; cl00224 693978003185 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 693978003186 substrate-cofactor binding pocket; other site 693978003187 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; cl17244 693978003188 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 693978003189 Fic family protein [Function unknown]; Region: COG3177 693978003190 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 693978003191 Fic/DOC family; Region: Fic; pfam02661 693978003192 Uncharacterized conserved protein [Function unknown]; Region: COG0397 693978003193 hypothetical protein; Validated; Region: PRK00029 693978003194 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 693978003195 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; cl17244 693978003196 aspartate aminotransferase; Provisional; Region: PRK07568 693978003197 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 693978003198 pyridoxal 5'-phosphate binding site [chemical binding]; other site 693978003199 homodimer interface [polypeptide binding]; other site 693978003200 catalytic residue [active] 693978003201 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK06039 693978003202 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 693978003203 active site 693978003204 HIGH motif; other site 693978003205 nucleotide binding site [chemical binding]; other site 693978003206 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 693978003207 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 693978003208 active site 693978003209 KMSKS motif; other site 693978003210 Anticodon-binding domain of archaeal, bacterial, and eukaryotic cytoplasmic isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_ABEc; cd07961 693978003211 tRNA binding surface [nucleotide binding]; other site 693978003212 anticodon binding site; other site 693978003213 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 693978003214 lipoprotein signal peptidase; Provisional; Region: PRK14788 693978003215 lipoprotein signal peptidase; Provisional; Region: PRK14787 693978003216 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 693978003217 putative active site [active] 693978003218 GTP-binding protein LepA; Provisional; Region: PRK05433 693978003219 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 693978003220 G1 box; other site 693978003221 putative GEF interaction site [polypeptide binding]; other site 693978003222 GTP/Mg2+ binding site [chemical binding]; other site 693978003223 Switch I region; other site 693978003224 G2 box; other site 693978003225 G3 box; other site 693978003226 Switch II region; other site 693978003227 G4 box; other site 693978003228 G5 box; other site 693978003229 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 693978003230 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 693978003231 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 693978003232 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 693978003233 S23 ribosomal protein; Region: Ribosomal_S23p; pfam05635 693978003234 four helix bundle protein; Region: TIGR02436 693978003235 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 693978003236 putative ABC transporter; Region: ycf24; CHL00085 693978003237 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 693978003238 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 693978003239 V-type ATP synthase subunit I; Validated; Region: PRK05771 693978003240 lipoprotein involved with copper homeostasis and adhesion; Provisional; Region: PRK10523 693978003241 NlpE N-terminal domain; Region: NlpE; pfam04170 693978003242 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 693978003243 active site 693978003244 homotetramer interface [polypeptide binding]; other site 693978003245 Domain of unknown function (DUF336); Region: DUF336; pfam03928 693978003246 Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]; Region: sufC; COG0396 693978003247 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 693978003248 Walker A/P-loop; other site 693978003249 ATP binding site [chemical binding]; other site 693978003250 Q-loop/lid; other site 693978003251 ABC transporter signature motif; other site 693978003252 Walker B; other site 693978003253 D-loop; other site 693978003254 H-loop/switch region; other site 693978003255 FeS assembly protein SufD; Region: sufD; TIGR01981 693978003256 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 693978003257 Type III pantothenate kinase; Region: Pan_kinase; cl17198 693978003258 Peptidase M1 family containing bacterial Aminopeptidase N; Region: M1_APN_5; cd09604 693978003259 Zn binding site [ion binding]; other site 693978003260 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 693978003261 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 693978003262 active site 693978003263 phosphorylation site [posttranslational modification] 693978003264 intermolecular recognition site; other site 693978003265 dimerization interface [polypeptide binding]; other site 693978003266 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; cl17355 693978003267 DNA binding site [nucleotide binding] 693978003268 Domain of unknown function (DUF4290); Region: DUF4290; pfam14123 693978003269 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 693978003270 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 693978003271 hinge; other site 693978003272 active site 693978003273 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 693978003274 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 693978003275 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 693978003276 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 693978003277 putative catalytic residue [active] 693978003278 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 693978003279 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 693978003280 Uncharacterized conserved protein [Function unknown]; Region: COG3743 693978003281 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 693978003282 FAD binding domain; Region: FAD_binding_4; pfam01565 693978003283 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 693978003284 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 693978003285 Outer membrane efflux protein; Region: OEP; pfam02321 693978003286 Outer membrane efflux protein; Region: OEP; pfam02321 693978003287 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 693978003288 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 693978003289 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 693978003290 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 693978003291 Walker A/P-loop; other site 693978003292 ATP binding site [chemical binding]; other site 693978003293 Q-loop/lid; other site 693978003294 ABC transporter signature motif; other site 693978003295 Walker B; other site 693978003296 D-loop; other site 693978003297 H-loop/switch region; other site 693978003298 putative bifunctional UDP-N-acetylmuramoyl-tripeptide:D-alanyl-D-alanine ligase/alanine racemase; Provisional; Region: PRK11930 693978003299 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 693978003300 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 693978003301 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Alanine Racemase; Region: PLPDE_III_AR; cd00430 693978003302 active site 693978003303 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 693978003304 dimer interface [polypeptide binding]; other site 693978003305 substrate binding site [chemical binding]; other site 693978003306 catalytic residues [active] 693978003307 thymidine kinase; Provisional; Region: PRK04296 693978003308 Predicted methyltransferases [General function prediction only]; Region: COG0313 693978003309 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 693978003310 putative SAM binding site [chemical binding]; other site 693978003311 putative homodimer interface [polypeptide binding]; other site 693978003312 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 693978003313 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 693978003314 NAD(P) binding site [chemical binding]; other site 693978003315 homotetramer interface [polypeptide binding]; other site 693978003316 homodimer interface [polypeptide binding]; other site 693978003317 active site 693978003318 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 693978003319 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 693978003320 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 693978003321 DNA binding residues [nucleotide binding] 693978003322 dimerization interface [polypeptide binding]; other site 693978003323 ribonuclease R; Region: RNase_R; TIGR02063 693978003324 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 693978003325 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 693978003326 RNB domain; Region: RNB; pfam00773 693978003327 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...; Region: S1_RNase_R; cd04471 693978003328 RNA binding site [nucleotide binding]; other site 693978003329 Ribose/Galactose Isomerase; Region: LacAB_rpiB; pfam02502 693978003330 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 693978003331 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 693978003332 ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]; Region: clpA; COG0542 693978003333 Clp amino terminal domain; Region: Clp_N; pfam02861 693978003334 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 693978003335 Walker A motif; other site 693978003336 ATP binding site [chemical binding]; other site 693978003337 Walker B motif; other site 693978003338 arginine finger; other site 693978003339 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 693978003340 Walker A motif; other site 693978003341 ATP binding site [chemical binding]; other site 693978003342 Walker B motif; other site 693978003343 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 693978003344 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 693978003345 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 693978003346 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 693978003347 Cysteine desulfurase SufE subunit [Posttranslational modification, protein turnover, chaperones]; Region: sufE; COG2166 693978003348 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 693978003349 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 693978003350 putative active site [active] 693978003351 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 693978003352 active site 693978003353 Survival protein SurE; Region: SurE; cl00448 693978003354 C-terminal peptidase (prc); Region: prc; TIGR00225 693978003355 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 693978003356 protein binding site [polypeptide binding]; other site 693978003357 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 693978003358 Catalytic dyad [active] 693978003359 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 693978003360 Mechanosensitive ion channel; Region: MS_channel; pfam00924 693978003361 GLPGLI family protein; Region: GLPGLI; TIGR01200 693978003362 Protein of unknown function, DUF393; Region: DUF393; pfam04134 693978003363 Haem-binding domain; Region: Haem_bd; pfam14376 693978003364 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 693978003365 Dehydroquinase class II; Region: DHquinase_II; pfam01220 693978003366 active site 693978003367 trimer interface [polypeptide binding]; other site 693978003368 dimer interface [polypeptide binding]; other site 693978003369 PSP1 C-terminal conserved region; Region: PSP1; cl00770 693978003370 GldH lipoprotein; Region: GldH_lipo; pfam14109 693978003371 Transglycosylase; Region: Transgly; pfam00912 693978003372 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 693978003373 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 693978003374 ATP binding site [chemical binding]; other site 693978003375 substrate interface [chemical binding]; other site 693978003376 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 693978003377 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 693978003378 DNA binding residues [nucleotide binding] 693978003379 dimerization interface [polypeptide binding]; other site 693978003380 ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]; Region: CbiO; COG1122 693978003381 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 693978003382 GLPGLI family protein; Region: GLPGLI; TIGR01200 693978003383 Sporulation related domain; Region: SPOR; cl10051 693978003384 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 693978003385 Cytochrome c; Region: Cytochrom_C; pfam00034 693978003386 Heme-binding domain of the class III cytochrome C family and related proteins; Region: Cytochrom_C3; cd08168 693978003387 heme-binding residues [chemical binding]; other site 693978003388 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 693978003389 molybdopterin cofactor binding site; other site 693978003390 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 693978003391 4Fe-4S binding domain; Region: Fer4; cl02805 693978003392 4Fe-4S dicluster domain; Region: Fer4_11; pfam13247 693978003393 Polysulphide reductase [Energy production and conversion]; Region: COG5557; cl17901 693978003394 Polysulphide reductase, NrfD; Region: NrfD; pfam03916 693978003395 Protein of unknown function (DUF3341); Region: DUF3341; pfam11821 693978003396 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 693978003397 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 693978003398 NTF2-like N-terminal transpeptidase domain; Region: MecA_N; pfam05223 693978003399 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 693978003400 active site 693978003401 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1729 693978003402 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 693978003403 homopentamer interface [polypeptide binding]; other site 693978003404 active site 693978003405 Predicted metalloprotease [General function prediction only]; Region: COG2321 693978003406 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 693978003407 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 693978003408 Acyltransferase family; Region: Acyl_transf_3; pfam01757 693978003409 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 693978003410 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 693978003411 active site 693978003412 Protease II [Amino acid transport and metabolism]; Region: PtrB; COG1770 693978003413 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 693978003414 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 693978003415 ribosomal protein L33; Region: rpl33; CHL00104 693978003416 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 693978003417 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 693978003418 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 693978003419 Transglycosylase associated protein; Region: Transgly_assoc; cl00978 693978003420 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 693978003421 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 693978003422 active site 693978003423 interdomain interaction site; other site 693978003424 putative metal-binding site [ion binding]; other site 693978003425 nucleotide binding site [chemical binding]; other site 693978003426 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 693978003427 domain I; other site 693978003428 DNA binding groove [nucleotide binding] 693978003429 phosphate binding site [ion binding]; other site 693978003430 domain II; other site 693978003431 domain III; other site 693978003432 nucleotide binding site [chemical binding]; other site 693978003433 catalytic site [active] 693978003434 domain IV; other site 693978003435 Topoisomerase C-terminal repeat; Region: Toprim_C_rpt; pfam13368 693978003436 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 693978003437 putative active site [active] 693978003438 putative metal binding site [ion binding]; other site 693978003439 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 693978003440 active site 693978003441 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 693978003442 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 693978003443 Mg++ binding site [ion binding]; other site 693978003444 putative catalytic motif [active] 693978003445 substrate binding site [chemical binding]; other site 693978003446 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 693978003447 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 693978003448 Uncharacterized protein involved in exopolysaccharide biosynthesis [Cell envelope biogenesis, outer membrane]; Region: GumC; COG3206 693978003449 capsular exopolysaccharide family; Region: eps_fam; TIGR01007 693978003450 The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain. Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion; Region: Fer4_NifH; cl17203 693978003451 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 693978003452 MutS domain I; Region: MutS_I; pfam01624 693978003453 MutS domain II; Region: MutS_II; pfam05188 693978003454 MutS domain III; Region: MutS_III; pfam05192 693978003455 ATP-binding cassette domain of MutS1 homolog; Region: ABC_MutS1; cd03284 693978003456 Walker A/P-loop; other site 693978003457 ATP binding site [chemical binding]; other site 693978003458 Q-loop/lid; other site 693978003459 ABC transporter signature motif; other site 693978003460 Walker B; other site 693978003461 D-loop; other site 693978003462 H-loop/switch region; other site 693978003463 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 693978003464 dolichyl-phosphate beta-D-mannosyltransferase; Region: PLN02726 693978003465 DPM1_like represents putative enzymes similar to eukaryotic DPM1; Region: DPM1_like; cd06442 693978003466 Ligand binding site; other site 693978003467 Putative Catalytic site; other site 693978003468 DXD motif; other site 693978003469 Domain of unknown function (DUF4296); Region: DUF4296; pfam14129 693978003470 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 693978003471 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 693978003472 Predicted permeases [General function prediction only]; Region: COG0795 693978003473 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 693978003474 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 693978003475 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 693978003476 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 693978003477 FtsH Extracellular; Region: FtsH_ext; pfam06480 693978003478 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 693978003479 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 693978003480 Walker A motif; other site 693978003481 ATP binding site [chemical binding]; other site 693978003482 Walker B motif; other site 693978003483 arginine finger; other site 693978003484 Peptidase family M41; Region: Peptidase_M41; pfam01434 693978003485 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 693978003486 non-specific DNA binding site [nucleotide binding]; other site 693978003487 salt bridge; other site 693978003488 sequence-specific DNA binding site [nucleotide binding]; other site 693978003489 Predicted helicase [General function prediction only]; Region: COG4889 693978003490 Domain of unknown function, B. Theta Gene description (DUF3871); Region: DUF3871; pfam12987 693978003491 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 693978003492 DEAD-like helicases superfamily; Region: DEXDc; smart00487 693978003493 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 693978003494 active site 693978003495 DNA binding site [nucleotide binding] 693978003496 Int/Topo IB signature motif; other site 693978003497 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 693978003498 RIP metalloprotease RseP; Region: TIGR00054 693978003499 active site 693978003500 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 693978003501 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 693978003502 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 693978003503 putative substrate binding region [chemical binding]; other site 693978003504 C-N hydrolase family amidase; Provisional; Region: PRK10438 693978003505 Xanthomonas campestris XC1258 and related proteins, members of the nitrilase superfamily (putative class 13 nitrilases); Region: Xc-1258_like; cd07575 693978003506 putative active site [active] 693978003507 catalytic triad [active] 693978003508 dimer interface [polypeptide binding]; other site 693978003509 multimer interface [polypeptide binding]; other site 693978003510 Glutathione synthase/Ribosomal protein S6 modification enzyme (glutaminyl transferase) [Coenzyme metabolism / Translation, ribosomal structure and biogenesis]; Region: RimK; COG0189 693978003511 ATP-grasp domain; Region: ATP-grasp_4; cl17255 693978003512 excinuclease ABC subunit B; Provisional; Region: PRK05298 693978003513 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 693978003514 ATP binding site [chemical binding]; other site 693978003515 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 693978003516 nucleotide binding region [chemical binding]; other site 693978003517 ATP-binding site [chemical binding]; other site 693978003518 Ultra-violet resistance protein B; Region: UvrB; pfam12344 693978003519 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 693978003520 Cyclic nucleotide-binding domain; Region: cNMP_binding; pfam00027 693978003521 ligand binding site [chemical binding]; other site 693978003522 DinB superfamily; Region: DinB_2; pfam12867 693978003523 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 693978003524 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 693978003525 catalytic triad [active] 693978003526 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 693978003527 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 693978003528 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 693978003529 active site 693978003530 50S ribosomal protein L25/general stress protein Ctc; Reviewed; Region: PRK05618 693978003531 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 693978003532 5S rRNA interface [nucleotide binding]; other site 693978003533 CTC domain interface [polypeptide binding]; other site 693978003534 L16 interface [polypeptide binding]; other site 693978003535 SprT homologues; Region: SprT; cl01182 693978003536 Mannose-1-phosphate guanylyltransferase [Cell envelope biogenesis, outer membrane]; Region: {ManC}; COG0836 693978003537 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 693978003538 Substrate binding site; other site 693978003539 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 693978003540 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 693978003541 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 693978003542 Walker A motif; other site 693978003543 ATP binding site [chemical binding]; other site 693978003544 Walker B motif; other site 693978003545 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 693978003546 GLPGLI family protein; Region: GLPGLI; TIGR01200 693978003547 RNA polymerase sigma factor; Provisional; Region: PRK12513 693978003548 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 693978003549 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 693978003550 DNA binding residues [nucleotide binding] 693978003551 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 693978003552 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 693978003553 motif II; other site 693978003554 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 693978003555 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 693978003556 active site 693978003557 HIGH motif; other site 693978003558 dimer interface [polypeptide binding]; other site 693978003559 KMSKS motif; other site 693978003560 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 693978003561 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 693978003562 dimer interface [polypeptide binding]; other site 693978003563 catalytic triad [active] 693978003564 hypothetical protein; Reviewed; Region: PRK12497 693978003565 Histidine kinase; Region: His_kinase; pfam06580 693978003566 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 693978003567 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 693978003568 active site 693978003569 phosphorylation site [posttranslational modification] 693978003570 intermolecular recognition site; other site 693978003571 dimerization interface [polypeptide binding]; other site 693978003572 LytTr DNA-binding domain; Region: LytTR; smart00850 693978003573 Tic20-like protein; Region: Tic20; pfam09685 693978003574 NlpC/P60 family; Region: NLPC_P60; pfam00877 693978003575 Uncharacterized protein related to glutamine synthetase [General function prediction only]; Region: COG3968 693978003576 Glutamine synthetase type III N terminal; Region: GSIII_N; pfam12437 693978003577 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 693978003578 Protein of unknown function (DUF3078); Region: DUF3078; pfam11276 693978003579 Rhomboid family; Region: Rhomboid; cl11446 693978003580 Domain of unknown function (DUF1905); Region: DUF1905; pfam08922 693978003581 A new structural DNA glycosylase; Region: AlkD_like; cl11434 693978003582 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 693978003583 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 693978003584 FAD binding pocket [chemical binding]; other site 693978003585 conserved FAD binding motif [chemical binding]; other site 693978003586 phosphate binding motif [ion binding]; other site 693978003587 beta-alpha-beta structure motif; other site 693978003588 NAD binding pocket [chemical binding]; other site 693978003589 DNA alkylation repair enzyme; Region: DNA_alkylation; pfam08713 693978003590 A new structural DNA glycosylase; Region: AlkD_like; cd06561 693978003591 active site 693978003592 Heavy-metal-associated domain; Region: HMA; pfam00403 693978003593 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 693978003594 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; cl17244 693978003595 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 693978003596 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 693978003597 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; cl17244 693978003598 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 693978003599 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; cl17244 693978003600 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; cl17244 693978003601 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 693978003602 dimer interface [polypeptide binding]; other site 693978003603 FMN binding site [chemical binding]; other site 693978003604 Surface antigen; Region: Bac_surface_Ag; pfam01103 693978003605 NUMOD4 motif; Region: NUMOD4; pfam07463 693978003606 HNH endonuclease; Region: HNH_3; pfam13392 693978003607 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cl17393 693978003608 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 693978003609 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 693978003610 HflX GTPase family; Region: HflX; cd01878 693978003611 G1 box; other site 693978003612 GTP/Mg2+ binding site [chemical binding]; other site 693978003613 Switch I region; other site 693978003614 G2 box; other site 693978003615 G3 box; other site 693978003616 Switch II region; other site 693978003617 G4 box; other site 693978003618 G5 box; other site 693978003619 tRNA methyl transferase; Region: tRNA_Me_trans; pfam03054 693978003620 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 693978003621 FeoA domain; Region: FeoA; pfam04023 693978003622 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 693978003623 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 693978003624 G1 box; other site 693978003625 GTP/Mg2+ binding site [chemical binding]; other site 693978003626 Switch I region; other site 693978003627 G2 box; other site 693978003628 G3 box; other site 693978003629 Switch II region; other site 693978003630 G4 box; other site 693978003631 G5 box; other site 693978003632 Nucleoside recognition; Region: Gate; pfam07670 693978003633 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 693978003634 Nucleoside recognition; Region: Gate; pfam07670 693978003635 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 693978003636 Domain of unknown function (DUF3127); Region: DUF3127; pfam11325 693978003637 C-terminal processing peptidase family S41; Region: Peptidase_S41; cd06567 693978003638 Active site serine [active] 693978003639 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 693978003640 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 693978003641 Sm and related proteins; Region: Sm_like; cl00259 693978003642 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 693978003643 putative oligomer interface [polypeptide binding]; other site 693978003644 putative RNA binding site [nucleotide binding]; other site 693978003645 transcription termination factor NusA; Region: NusA; TIGR01953 693978003646 NusA N-terminal domain; Region: NusA_N; pfam08529 693978003647 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 693978003648 RNA binding site [nucleotide binding]; other site 693978003649 homodimer interface [polypeptide binding]; other site 693978003650 NusA-like KH domain; Region: KH_5; pfam13184 693978003651 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 693978003652 G-X-X-G motif; other site 693978003653 translation initiation factor IF-2; Region: IF-2; TIGR00487 693978003654 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 693978003655 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 693978003656 G1 box; other site 693978003657 putative GEF interaction site [polypeptide binding]; other site 693978003658 GTP/Mg2+ binding site [chemical binding]; other site 693978003659 Switch I region; other site 693978003660 G2 box; other site 693978003661 G3 box; other site 693978003662 Switch II region; other site 693978003663 G4 box; other site 693978003664 G5 box; other site 693978003665 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 693978003666 Translation-initiation factor 2; Region: IF-2; pfam11987 693978003667 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 693978003668 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 693978003669 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 693978003670 starch binding outer membrane protein SusD; Region: SusD; cd08977 693978003671 Domain of unknown function (DUF4289); Region: DUF4289; pfam14121 693978003672 Uncharacterized protein conserved in bacteria (DUF2317); Region: DUF2317; pfam10079 693978003673 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4365 693978003674 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 693978003675 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 693978003676 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 693978003677 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 693978003678 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 693978003679 ligand binding site [chemical binding]; other site 693978003680 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 693978003681 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 693978003682 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 693978003683 catalytic residues [active] 693978003684 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 693978003685 active site residue [active] 693978003686 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 693978003687 active site residue [active] 693978003688 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 693978003689 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 693978003690 active site residue [active] 693978003691 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 693978003692 active site residue [active] 693978003693 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 693978003694 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 693978003695 exonuclease, DNA polymerase III, epsilon subunit family; Region: dnaq; TIGR00573 693978003696 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 693978003697 active site 693978003698 catalytic site [active] 693978003699 substrate binding site [chemical binding]; other site 693978003700 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 693978003701 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 693978003702 Walker A/P-loop; other site 693978003703 ATP binding site [chemical binding]; other site 693978003704 Q-loop/lid; other site 693978003705 metal ion transporter CorA-like divalent cation transporter superfamily; Region: MIT_CorA-like; cl00459 693978003706 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 693978003707 Q-loop/lid; other site 693978003708 ABC transporter signature motif; other site 693978003709 Walker B; other site 693978003710 D-loop; other site 693978003711 H-loop/switch region; other site 693978003712 GLPGLI family protein; Region: GLPGLI; TIGR01200 693978003713 Protein of unknown function (DUF502); Region: DUF502; cl01107 693978003714 biotin synthase; Region: bioB; TIGR00433 693978003715 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 693978003716 FeS/SAM binding site; other site 693978003717 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 693978003718 GLPGLI family protein; Region: GLPGLI; TIGR01200 693978003719 thiamine-monophosphate kinase; Region: thiL; TIGR01379 693978003720 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 693978003721 ATP binding site [chemical binding]; other site 693978003722 dimerization interface [polypeptide binding]; other site 693978003723 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 693978003724 active site 693978003725 Domain of unknown function (DUF4153); Region: DUF4153; pfam13687 693978003726 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 693978003727 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14329 693978003728 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 693978003729 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 693978003730 FeS/SAM binding site; other site 693978003731 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 693978003732 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 693978003733 Walker A motif; other site 693978003734 ATP binding site [chemical binding]; other site 693978003735 Walker B motif; other site 693978003736 arginine finger; other site 693978003737 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 693978003738 Ribonuclease P; Region: Ribonuclease_P; pfam00825 693978003739 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 693978003740 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 693978003741 putative ATP binding site [chemical binding]; other site 693978003742 putative substrate interface [chemical binding]; other site 693978003743 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 693978003744 active site 693978003745 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 693978003746 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 693978003747 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 693978003748 Nucleoside-diphosphate-sugar pyrophosphorylase involved in lipopolysaccharide biosynthesis/translation initiation factor 2B, gamma/epsilon subunits (eIF-2Bgamma/eIF-2Bepsilon) [Cell envelope biogenesis, outer membrane / Translation, ribosomal structure...; Region: GCD1; COG1208 693978003749 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 693978003750 Substrate binding site; other site 693978003751 metal-binding site 693978003752 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 693978003753 Flavoprotein; Region: Flavoprotein; pfam02441 693978003754 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 693978003755 RNA polymerase Rpb6; Region: RNA_pol_Rpb6; cl14651 693978003756 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 693978003757 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 693978003758 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 693978003759 NAD(P) binding site [chemical binding]; other site 693978003760 active site 693978003761 Protein of unknown function (DUF2795); Region: DUF2795; pfam11387 693978003762 preprotein translocase subunit SecA; Reviewed; Region: secA; PRK12901 693978003763 SecA preprotein cross-linking domain; Region: SecA_PP_bind; pfam01043 693978003764 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 693978003765 nucleotide binding region [chemical binding]; other site 693978003766 ATP-binding site [chemical binding]; other site 693978003767 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 693978003768 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; cl17244 693978003769 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 693978003770 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cd00012 693978003771 nucleotide binding site [chemical binding]; other site 693978003772 GTP-binding protein Der; Reviewed; Region: PRK00093 693978003773 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 693978003774 G1 box; other site 693978003775 GTP/Mg2+ binding site [chemical binding]; other site 693978003776 Switch I region; other site 693978003777 G2 box; other site 693978003778 Switch II region; other site 693978003779 G3 box; other site 693978003780 G4 box; other site 693978003781 G5 box; other site 693978003782 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 693978003783 G1 box; other site 693978003784 GTP/Mg2+ binding site [chemical binding]; other site 693978003785 Switch I region; other site 693978003786 G2 box; other site 693978003787 G3 box; other site 693978003788 Switch II region; other site 693978003789 G4 box; other site 693978003790 G5 box; other site 693978003791 potential frameshift: common BLAST hit: gi|313206834|ref|YP_004046011.1| cell shape determining protein, mreb/mrl family 693978003792 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 693978003793 nucleotide binding site [chemical binding]; other site 693978003794 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 693978003795 rod shape-determining protein MreC; Provisional; Region: PRK13922 693978003796 rod shape-determining protein MreC; Region: MreC; pfam04085 693978003797 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 693978003798 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 693978003799 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 693978003800 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 693978003801 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 693978003802 ligand binding site [chemical binding]; other site 693978003803 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 693978003804 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 693978003805 S-adenosylmethionine binding site [chemical binding]; other site 693978003806 Bacterial SH3 domain; Region: SH3_3; cl17532 693978003807 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 693978003808 NlpC/P60 family; Region: NLPC_P60; pfam00877 693978003809 Protein of unknown function (DUF1648); Region: DUF1648; pfam07853 693978003810 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 693978003811 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 693978003812 catecholate siderophore receptor CirA; Provisional; Region: PRK10064 693978003813 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 693978003814 N-terminal plug; other site 693978003815 ligand-binding site [chemical binding]; other site 693978003816 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 693978003817 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 693978003818 Coenzyme A binding pocket [chemical binding]; other site 693978003819 bacillithiol system oxidoreductase, YphP/YqiW family; Region: YphP_YqiW; TIGR04191 693978003820 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 693978003821 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 693978003822 substrate binding site [chemical binding]; other site 693978003823 active site 693978003824 uroporphyrinogen-III synthase; Reviewed; Region: hemD; PRK05928 693978003825 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 693978003826 active site 693978003827 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 693978003828 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; cl17708 693978003829 domain interfaces; other site 693978003830 active site 693978003831 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 693978003832 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 693978003833 tRNA; other site 693978003834 putative tRNA binding site [nucleotide binding]; other site 693978003835 putative NADP binding site [chemical binding]; other site 693978003836 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 693978003837 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 693978003838 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 693978003839 ligand binding site [chemical binding]; other site 693978003840 flexible hinge region; other site 693978003841 GLPGLI family protein; Region: GLPGLI; TIGR01200 693978003842 Domain of unknown function (DUF4407); Region: DUF4407; pfam14362 693978003843 Phosphate transporter family; Region: PHO4; pfam01384 693978003844 Phosphate transporter family; Region: PHO4; cl00396 693978003845 fumarate hydratase; Provisional; Region: PRK15389 693978003846 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 693978003847 Fumarase C-terminus; Region: Fumerase_C; pfam05683 693978003848 peptidase T; Region: peptidase-T; TIGR01882 693978003849 M20 Peptidase T specifically cleaves tripeptides; Region: M20_peptT; cd03892 693978003850 metal binding site [ion binding]; metal-binding site 693978003851 dimer interface [polypeptide binding]; other site 693978003852 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 693978003853 active site 693978003854 catalytic residues [active] 693978003855 metal binding site [ion binding]; metal-binding site 693978003856 glycyl-tRNA synthetase; Provisional; Region: PRK04173 693978003857 Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it...; Region: class_II_aaRS-like_core; cl00268 693978003858 motif 1; other site 693978003859 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 693978003860 active site 693978003861 motif 2; other site 693978003862 motif 3; other site 693978003863 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 693978003864 anticodon binding site; other site 693978003865 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 693978003866 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 693978003867 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 693978003868 catalytic residue [active] 693978003869 Flagellin N-methylase; Region: FliB; pfam03692 693978003870 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 693978003871 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 693978003872 dimer interface [polypeptide binding]; other site 693978003873 active site 693978003874 heme binding site [chemical binding]; other site 693978003875 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 693978003876 Histone acetyltransferase HPA2 and related acetyltransferases [Transcription / General function prediction only]; Region: WecD; COG0454 693978003877 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 693978003878 Coenzyme A binding pocket [chemical binding]; other site 693978003879 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 693978003880 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 693978003881 RmuC family; Region: RmuC; pfam02646 693978003882 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 693978003883 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 693978003884 active site 693978003885 DNA-binding ferritin-like protein (oxidative damage protectant) [Inorganic ion transport and metabolism]; Region: Dps; COG0783 693978003886 DPS protein, ferritin-like diiron-binding domain; Region: DPS; cd01043 693978003887 dimerization interface [polypeptide binding]; other site 693978003888 DPS ferroxidase diiron center [ion binding]; other site 693978003889 ion pore; other site 693978003890 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 693978003891 S17 interaction site [polypeptide binding]; other site 693978003892 S8 interaction site; other site 693978003893 16S rRNA interaction site [nucleotide binding]; other site 693978003894 streptomycin interaction site [chemical binding]; other site 693978003895 23S rRNA interaction site [nucleotide binding]; other site 693978003896 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 693978003897 30S ribosomal protein S7; Validated; Region: PRK05302 693978003898 elongation factor G; Reviewed; Region: PRK12739 693978003899 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 693978003900 G1 box; other site 693978003901 putative GEF interaction site [polypeptide binding]; other site 693978003902 GTP/Mg2+ binding site [chemical binding]; other site 693978003903 Switch I region; other site 693978003904 G2 box; other site 693978003905 G3 box; other site 693978003906 Switch II region; other site 693978003907 G4 box; other site 693978003908 G5 box; other site 693978003909 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 693978003910 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 693978003911 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 693978003912 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 693978003913 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 693978003914 GLPGLI family protein; Region: GLPGLI; TIGR01200 693978003915 GLPGLI family protein; Region: GLPGLI; TIGR01200 693978003916 GLPGLI family protein; Region: GLPGLI; TIGR01200 693978003917 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 693978003918 NAD(P) binding site [chemical binding]; other site 693978003919 active site 693978003920 ferrochelatase; Reviewed; Region: hemH; PRK00035 693978003921 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 693978003922 C-terminal domain interface [polypeptide binding]; other site 693978003923 active site 693978003924 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 693978003925 active site 693978003926 N-terminal domain interface [polypeptide binding]; other site 693978003927 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; cl07364 693978003928 Scaffold protein Nfu/NifU N terminal; Region: Nfu_N; pfam08712 693978003929 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 693978003930 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 693978003931 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 693978003932 trimer interface [polypeptide binding]; other site 693978003933 putative metal binding site [ion binding]; other site 693978003934 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 693978003935 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 693978003936 AAA domain; Region: AAA_30; pfam13604 693978003937 AAA domain; Region: AAA_22; pfam13401 693978003938 Family description; Region: UvrD_C_2; pfam13538 693978003939 Phosphotransferase enzyme family; Region: APH; pfam01636 693978003940 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 693978003941 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 693978003942 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 693978003943 putative active site [active] 693978003944 catalytic triad [active] 693978003945 putative dimer interface [polypeptide binding]; other site 693978003946 VanZ like family; Region: VanZ; pfam04892 693978003947 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 693978003948 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 693978003949 GIY-YIG motif/motif A; other site 693978003950 active site 693978003951 catalytic site [active] 693978003952 putative DNA binding site [nucleotide binding]; other site 693978003953 metal binding site [ion binding]; metal-binding site 693978003954 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 693978003955 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 693978003956 Cation efflux family; Region: Cation_efflux; pfam01545 693978003957 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 693978003958 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 693978003959 CoA-binding site [chemical binding]; other site 693978003960 ATP-binding [chemical binding]; other site 693978003961 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 693978003962 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 693978003963 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 693978003964 Walker A motif; other site 693978003965 ATP binding site [chemical binding]; other site 693978003966 Walker B motif; other site 693978003967 arginine finger; other site 693978003968 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 693978003969 nonheme-containing ferritins; Region: Nonheme_Ferritin; cd01055 693978003970 Ferritin-like domain; Region: Ferritin; pfam00210 693978003971 ferroxidase diiron center [ion binding]; other site 693978003972 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 693978003973 nudix motif; other site 693978003974 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 693978003975 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 693978003976 active site 693978003977 DNA binding site [nucleotide binding] 693978003978 Int/Topo IB signature motif; other site 693978003979 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 693978003980 catalytic motif [active] 693978003981 Zn binding site [ion binding]; other site 693978003982 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 693978003983 enoyl-CoA hydratase; Provisional; Region: PRK07658 693978003984 substrate binding site [chemical binding]; other site 693978003985 oxyanion hole (OAH) forming residues; other site 693978003986 trimer interface [polypeptide binding]; other site 693978003987 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 693978003988 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 693978003989 active site 693978003990 catalytic tetrad [active] 693978003991 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 693978003992 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 693978003993 tetramer interface [polypeptide binding]; other site 693978003994 heme binding pocket [chemical binding]; other site 693978003995 NADPH binding site [chemical binding]; other site 693978003996 Transcriptional regulator [Transcription]; Region: LysR; COG0583 693978003997 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 693978003998 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 693978003999 dimerization interface [polypeptide binding]; other site 693978004000 S-adenosylmethionine synthetase; Validated; Region: PRK05250 693978004001 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 693978004002 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 693978004003 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 693978004004 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 693978004005 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 693978004006 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 693978004007 transcription antitermination factor NusB; Region: nusB; TIGR01951 693978004008 Protein of unknown function (DUF1573); Region: DUF1573; pfam07610 693978004009 Preprotein translocase subunit; Region: YajC; pfam02699 693978004010 Uncharacterized conserved protein [Function unknown]; Region: COG2966 693978004011 Protein of unknown function (DUF1212); Region: DUF1212; pfam06738 693978004012 Protein of unknown function (DUF3815); Region: DUF3815; cl01118 693978004013 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 693978004014 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 693978004015 NAD(P) binding site [chemical binding]; other site 693978004016 active site 693978004017 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 693978004018 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 693978004019 active site 693978004020 HIGH motif; other site 693978004021 nucleotide binding site [chemical binding]; other site 693978004022 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 693978004023 KMSKS motif; other site 693978004024 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 693978004025 GTP cyclohydrolase I; Provisional; Region: folE; PRK09347 693978004026 GTP cyclohydrolase I; Provisional; Region: PLN03044 693978004027 active site 693978004028 UDP-galactopyranose mutase [Cell envelope biogenesis, outer membrane]; Region: Glf; COG0562 693978004029 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 693978004030 UDP-galactopyranose mutase; Region: GLF; pfam03275 693978004031 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 693978004032 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 693978004033 active site 693978004034 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 693978004035 Glycosyltransferase sugar-binding region containing DXD motif; Region: Gly_transf_sug; pfam04488 693978004036 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 693978004037 active site 693978004038 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 693978004039 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 693978004040 active site 693978004041 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 693978004042 trimer interface [polypeptide binding]; other site 693978004043 active site 693978004044 substrate binding site [chemical binding]; other site 693978004045 CoA binding site [chemical binding]; other site 693978004046 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 693978004047 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 693978004048 active site 693978004049 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 693978004050 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 693978004051 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 693978004052 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 693978004053 glucose-1-phosphate thymidylylransferase, long form; Region: rmlA_long; TIGR01208 693978004054 NTP_transferases catalyze the transfer of nucleotides onto phosphosugars; Region: NTP_transferase; cd04181 693978004055 active site 693978004056 Substrate binding site; other site 693978004057 Mg++ binding site; other site 693978004058 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 693978004059 putative trimer interface [polypeptide binding]; other site 693978004060 putative CoA binding site [chemical binding]; other site 693978004061 Domain of unknown function (DUF4292); Region: DUF4292; pfam14125 693978004062 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3883 693978004063 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 693978004064 Peptidase family M23; Region: Peptidase_M23; pfam01551 693978004065 twin arginine-targeting protein translocase, TatA/E family; Region: tatAE; TIGR01411 693978004066 Sec-independent protein secretion pathway components [Intracellular trafficking and secretion]; Region: TatA; COG1826 693978004067 Protein of unknown function (DUF4254); Region: DUF4254; pfam14063 693978004068 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 693978004069 dimerization interface [polypeptide binding]; other site 693978004070 active site 693978004071 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 693978004072 Glycosyl hydrolase family 3 N terminal domain; Region: Glyco_hydro_3; pfam00933 693978004073 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 693978004074 N-acetyl-alpha-D-glucosaminyl L-malate synthase BshA; Region: thiol_BshA; TIGR03999 693978004075 Protein of unknown function (DUF2851); Region: DUF2851; pfam11013 693978004076 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 693978004077 Protein of unknown function (DUF3810); Region: DUF3810; pfam12725 693978004078 Fucose permease [Carbohydrate transport and metabolism]; Region: FucP; COG0738 693978004079 L-fucose transporter; Provisional; Region: PRK10133; cl17665 693978004080 L-fucose transporter; Provisional; Region: PRK10133; cl17665 693978004081 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 693978004082 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 693978004083 putative acyl-acceptor binding pocket; other site 693978004084 Predicted membrane protein [Function unknown]; Region: COG2246 693978004085 GtrA-like protein; Region: GtrA; pfam04138 693978004086 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; cl17244 693978004087 TonB dependent receptor; Region: TonB_dep_Rec; pfam00593 693978004088 Restriction endonuclease EcoRI; Region: EcoRI; pfam02963 693978004089 BadF/BadG/BcrA/BcrD ATPase family; Region: BcrAD_BadFG; cl17271 693978004090 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 693978004091 Malic enzyme, N-terminal domain; Region: malic; pfam00390 693978004092 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 693978004093 putative NAD(P) binding site [chemical binding]; other site 693978004094 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 693978004095 Domain of unknown function (DUF4173); Region: DUF4173; pfam13777 693978004096 Winged helix DNA-binding domain; Region: HTH_34; pfam13601 693978004097 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 693978004098 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; cl17186 693978004099 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...; Region: CBS_pair_IMPDH; cd04601 693978004100 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...; Region: IMPDH; cd00381 693978004101 active site 693978004102 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 693978004103 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 693978004104 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 693978004105 Walker A/P-loop; other site 693978004106 ATP binding site [chemical binding]; other site 693978004107 Q-loop/lid; other site 693978004108 ABC transporter signature motif; other site 693978004109 Walker B; other site 693978004110 D-loop; other site 693978004111 H-loop/switch region; other site 693978004112 Domain of unknown function (DUF4293); Region: DUF4293; pfam14126 693978004113 transcription termination factor Rho; Provisional; Region: PRK12608 693978004114 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 693978004115 RNA binding site [nucleotide binding]; other site 693978004116 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 693978004117 multimer interface [polypeptide binding]; other site 693978004118 Walker A motif; other site 693978004119 ATP binding site [chemical binding]; other site 693978004120 Walker B motif; other site 693978004121 Phytase; Region: Phytase; cl17685 693978004122 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 693978004123 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 693978004124 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; cl17244 693978004125 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; cl17244 693978004126 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 693978004127 rRNA interaction site [nucleotide binding]; other site 693978004128 S8 interaction site; other site 693978004129 putative laminin-1 binding site; other site 693978004130 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 693978004131 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 693978004132 23S rRNA interface [nucleotide binding]; other site 693978004133 L3 interface [polypeptide binding]; other site 693978004134 Domain of unknown function DUF59; Region: DUF59; cl00941 693978004135 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 693978004136 active site 693978004137 catalytic site [active] 693978004138 substrate binding site [chemical binding]; other site 693978004139 Uncharacterized membrane protein, required for spore maturation in B.subtilis. [General function prediction only]; Region: SpmA; COG2715 693978004140 Uncharacterized membrane protein [Function unknown]; Region: SpmB; COG0700 693978004141 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 693978004142 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 693978004143 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 693978004144 Family description; Region: DsbD_2; pfam13386 693978004145 FixH; Region: FixH; pfam05751 693978004146 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 693978004147 4Fe-4S binding domain; Region: Fer4_5; pfam12801 693978004148 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 693978004149 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 693978004150 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 693978004151 Cbb3-type cytochrome oxidase component FixQ; Region: FixQ; pfam05545 693978004152 putative bifunctional cbb3-type cytochrome c oxidase subunit I/II; Provisional; Region: PRK14485 693978004153 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 693978004154 Low-spin heme binding site [chemical binding]; other site 693978004155 Putative water exit pathway; other site 693978004156 Binuclear center (active site) [active] 693978004157 Putative proton exit pathway; other site 693978004158 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; pfam02433 693978004159 Cytochrome oxidase maturation protein cbb3-type; Region: CcoS; pfam03597 693978004160 Putative metal-binding domain of cation transport ATPase; Region: ATPase-cat_bd; pfam12156 693978004161 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 693978004162 Heavy-metal-associated domain; Region: HMA; pfam00403 693978004163 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 693978004164 Soluble P-type ATPase [General function prediction only]; Region: COG4087 693978004165 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 693978004166 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 693978004167 ligand binding site [chemical binding]; other site 693978004168 flexible hinge region; other site 693978004169 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 693978004170 non-specific DNA interactions [nucleotide binding]; other site 693978004171 DNA binding site [nucleotide binding] 693978004172 sequence specific DNA binding site [nucleotide binding]; other site 693978004173 putative cAMP binding site [chemical binding]; other site 693978004174 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 693978004175 active site 693978004176 oligomerization interface [polypeptide binding]; other site 693978004177 metal binding site [ion binding]; metal-binding site 693978004178 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 693978004179 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 693978004180 active site 693978004181 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 693978004182 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 693978004183 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 693978004184 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 693978004185 active site 693978004186 DNA binding site [nucleotide binding] 693978004187 Int/Topo IB signature motif; other site 693978004188 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...; Region: RaiA; cd00552 693978004189 30S subunit binding site; other site 693978004190 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 693978004191 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 693978004192 quinone interaction residues [chemical binding]; other site 693978004193 active site 693978004194 catalytic residues [active] 693978004195 FMN binding site [chemical binding]; other site 693978004196 substrate binding site [chemical binding]; other site 693978004197 elongation factor Tu; Reviewed; Region: PRK12735 693978004198 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 693978004199 GEF interaction site [polypeptide binding]; other site 693978004200 GTP/Mg2+ binding site [chemical binding]; other site 693978004201 Switch I region; other site 693978004202 G2 box; other site 693978004203 G3 box; other site 693978004204 Switch II region; other site 693978004205 G4 box; other site 693978004206 G5 box; other site 693978004207 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 693978004208 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 693978004209 Antibiotic Binding Site [chemical binding]; other site 693978004210 SecE/Sec61-gamma subunits of protein translocation complex; Region: SecE; pfam00584 693978004211 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 693978004212 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 693978004213 putative homodimer interface [polypeptide binding]; other site 693978004214 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 693978004215 heterodimer interface [polypeptide binding]; other site 693978004216 homodimer interface [polypeptide binding]; other site 693978004217 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 693978004218 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 693978004219 23S rRNA interface [nucleotide binding]; other site 693978004220 L7/L12 interface [polypeptide binding]; other site 693978004221 putative thiostrepton binding site; other site 693978004222 L25 interface [polypeptide binding]; other site 693978004223 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 693978004224 mRNA/rRNA interface [nucleotide binding]; other site 693978004225 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 693978004226 23S rRNA interface [nucleotide binding]; other site 693978004227 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 693978004228 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 693978004229 peripheral dimer interface [polypeptide binding]; other site 693978004230 core dimer interface [polypeptide binding]; other site 693978004231 L10 interface [polypeptide binding]; other site 693978004232 L11 interface [polypeptide binding]; other site 693978004233 putative EF-Tu interaction site [polypeptide binding]; other site 693978004234 putative EF-G interaction site [polypeptide binding]; other site 693978004235 Thrombospondin type 3 repeat; Region: TSP_3; pfam02412 693978004236 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 693978004237 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; cl17585 693978004238 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 693978004239 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 693978004240 RPB11 interaction site [polypeptide binding]; other site 693978004241 RPB12 interaction site [polypeptide binding]; other site 693978004242 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 693978004243 RPB3 interaction site [polypeptide binding]; other site 693978004244 RPB1 interaction site [polypeptide binding]; other site 693978004245 RPB11 interaction site [polypeptide binding]; other site 693978004246 RPB10 interaction site [polypeptide binding]; other site 693978004247 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 693978004248 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 693978004249 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 693978004250 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 693978004251 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 693978004252 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 693978004253 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 693978004254 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 693978004255 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 693978004256 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 693978004257 DNA binding site [nucleotide binding] 693978004258 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 693978004259 Protein of unknown function (DUF3467); Region: DUF3467; pfam11950 693978004260 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 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; cl17244 693978004262 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 693978004263 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 693978004264 Walker A/P-loop; other site 693978004265 ATP binding site [chemical binding]; other site 693978004266 Q-loop/lid; other site 693978004267 ABC transporter signature motif; other site 693978004268 Walker B; other site 693978004269 D-loop; other site 693978004270 H-loop/switch region; other site 693978004271 ABC transporter; Region: ABC_tran_2; pfam12848 693978004272 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 693978004273 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 693978004274 active site 693978004275 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 693978004276 enoyl-CoA hydratase; Provisional; Region: PRK08140 693978004277 substrate binding site [chemical binding]; other site 693978004278 oxyanion hole (OAH) forming residues; other site 693978004279 trimer interface [polypeptide binding]; other site 693978004280 hypothetical protein; Provisional; Region: PRK11820 693978004281 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 693978004282 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 693978004283 Dihydroneopterin aldolase; Region: FolB; pfam02152 693978004284 active site 693978004285 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 693978004286 lipoyl attachment site [posttranslational modification]; other site 693978004287 VanZ like family; Region: VanZ; cl01971 693978004288 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 693978004289 Adenylation domain of proteins similar to ATP-dependent polynucleotide ligases; Region: Adenylation_DNA_ligase_like; cl12015 693978004290 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 693978004291 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cd00138 693978004292 PLD-like domain; Region: PLDc_2; pfam13091 693978004293 putative active site [active] 693978004294 catalytic site [active] 693978004295 WYL domain; Region: WYL; pfam13280 693978004296 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 693978004297 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; cl17244 693978004298 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 693978004299 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 693978004300 asparaginyl-tRNA synthetase; Validated; Region: asnC; PRK03932 693978004301 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 693978004302 putative dimer interface [polypeptide binding]; other site 693978004303 putative anticodon binding site; other site 693978004304 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 693978004305 homodimer interface [polypeptide binding]; other site 693978004306 motif 1; other site 693978004307 motif 2; other site 693978004308 active site 693978004309 motif 3; other site 693978004310 butyryl-CoA:acetate CoA-transferase; Region: butyr_acet_CoA; TIGR03948 693978004311 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 693978004312 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 693978004313 homogentisate 1,2-dioxygenase; Region: HgmA; cl17306 693978004314 C-type lectin (CTL)/C-type lectin-like (CTLD) domain; Region: CLECT; cd00037 693978004315 The C-terminal domain of uncharacterized bacterial proteins; Region: Bvu_2165_C_like; cd12843 693978004316 glucokinase, proteobacterial type; Region: glk; TIGR00749 693978004317 Glucokinase; Region: Glucokinase; pfam02685 693978004318 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 693978004319 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...; Region: AlaRS_core; cd00673 693978004320 motif 1; other site 693978004321 active site 693978004322 motif 2; other site 693978004323 motif 3; other site 693978004324 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 693978004325 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 693978004326 SurA N-terminal domain; Region: SurA_N; pfam09312 693978004327 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 693978004328 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 693978004329 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 693978004330 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 693978004331 substrate binding site [chemical binding]; other site 693978004332 ATP binding site [chemical binding]; other site 693978004333 gliding motility-associated lipoprotein GldD; Region: GldD_lipo; TIGR03512 693978004334 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 693978004335 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 693978004336 minor groove reading motif; other site 693978004337 helix-hairpin-helix signature motif; other site 693978004338 substrate binding pocket [chemical binding]; other site 693978004339 active site 693978004340 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 693978004341 DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important...; Region: DNA_Glycosylase_C; cd03431 693978004342 DNA binding and oxoG recognition site [nucleotide binding] 693978004343 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 693978004344 IHF dimer interface [polypeptide binding]; other site 693978004345 IHF - DNA interface [nucleotide binding]; other site 693978004346 ribonuclease, Rne/Rng family; Region: RNaseEG; TIGR00757 693978004347 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 693978004348 homodimer interface [polypeptide binding]; other site 693978004349 oligonucleotide binding site [chemical binding]; other site 693978004350 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 693978004351 active site 693978004352 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 693978004353 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 693978004354 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 693978004355 starch binding outer membrane protein SusD; Region: SusD; cd08977 693978004356 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 693978004357 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 693978004358 RNA binding surface [nucleotide binding]; other site 693978004359 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 693978004360 active site 693978004361 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 693978004362 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 693978004363 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 693978004364 putative recombination protein RecB; Provisional; Region: PRK13909 693978004365 Part of AAA domain; Region: AAA_19; pfam13245 693978004366 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 693978004367 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 693978004368 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 693978004369 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 693978004370 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 693978004371 dimerization interface [polypeptide binding]; other site 693978004372 active site 693978004373 Class II hydroxymethylglutaryl-coenzyme A (HMG-CoA) reductase (HMGR); Region: HMG-CoA_reductase_classII; cd00644 693978004374 homodimer interface [polypeptide binding]; other site 693978004375 catalytic residues [active] 693978004376 NAD binding site [chemical binding]; other site 693978004377 substrate binding pocket [chemical binding]; other site 693978004378 flexible flap; other site 693978004379 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 693978004380 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 693978004381 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 693978004382 CoA-ligase; Region: Ligase_CoA; pfam00549 693978004383 Beta-lactamase; Region: Beta-lactamase; pfam00144 693978004384 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 693978004385 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 693978004386 Putative D-isomer specific 2-hydroxyacid dehydrogenases, NAD-binding and catalytic domains; Region: 2-Hacid_dh_14; cd12179 693978004387 putative ligand binding site [chemical binding]; other site 693978004388 putative NAD binding site [chemical binding]; other site 693978004389 catalytic site [active] 693978004390 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 693978004391 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 693978004392 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 693978004393 homodimer interface [polypeptide binding]; other site 693978004394 substrate-cofactor binding pocket; other site 693978004395 pyridoxal 5'-phosphate binding site [chemical binding]; other site 693978004396 catalytic residue [active] 693978004397 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 693978004398 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 693978004399 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 693978004400 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 693978004401 homoserine O-acetyltransferase; Provisional; Region: PRK06765 693978004402 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 693978004403 D-alanyl-alanine synthetase A; Reviewed; Region: ddl; PRK01966 693978004404 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 693978004405 ATP-grasp domain; Region: ATP-grasp_4; cl17255 693978004406 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 693978004407 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 693978004408 active site 693978004409 (T/H)XGH motif; other site 693978004410 Predicted membrane protein [Function unknown]; Region: COG2860 693978004411 UPF0126 domain; Region: UPF0126; pfam03458 693978004412 UPF0126 domain; Region: UPF0126; pfam03458 693978004413 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 693978004414 Protein of unknown function (DUF1343); Region: DUF1343; pfam07075 693978004415 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 693978004416 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 693978004417 FtsX-like permease family; Region: FtsX; pfam02687 693978004418 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 693978004419 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 693978004420 S-adenosylmethionine binding site [chemical binding]; other site 693978004421 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GpsA; COG0240 693978004422 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 693978004423 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 693978004424 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 693978004425 Coenzyme A binding pocket [chemical binding]; other site 693978004426 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 693978004427 active site residue [active] 693978004428 Protein of unknown function (DUF2459); Region: DUF2459; pfam09601 693978004429 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 693978004430 Peptidase family M23; Region: Peptidase_M23; pfam01551 693978004431 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 693978004432 Outer membrane protein beta-barrel domain; Region: OMP_b-brl_2; pfam13568 693978004433 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 693978004434 potential frameshift: common BLAST hit: gi|313207081|ref|YP_004046258.1| yd repeat protein 693978004435 Salmonella virulence plasmid 65kDa B protein; Region: SpvB; pfam03534 693978004436 Insecticide toxin TcdB middle/N-terminal region; Region: TcdB_toxin_midN; pfam12256 693978004437 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 693978004438 RHS Repeat; Region: RHS_repeat; pfam05593 693978004439 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 693978004440 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 693978004441 InsA C-terminal domain; Region: HTH_Tnp_IS1; pfam12759 693978004442 IS1 transposase; Region: DDE_Tnp_IS1; cl00721 693978004443 ATPase involved in DNA repair; Region: DUF3686; pfam12458 693978004444 AAA domain; Region: AAA_22; pfam13401 693978004445 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 693978004446 Walker A motif; other site 693978004447 ATP binding site [chemical binding]; other site 693978004448 Walker B motif; other site 693978004449 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2268 693978004450 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 693978004451 Phage shock protein A (IM30), suppresses sigma54-dependent transcription [Transcription / Signal transduction mechanisms]; Region: PspA; COG1842 693978004452 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 693978004453 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 693978004454 non-specific DNA binding site [nucleotide binding]; other site 693978004455 salt bridge; other site 693978004456 sequence-specific DNA binding site [nucleotide binding]; other site 693978004457 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 693978004458 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 693978004459 nucleotide binding pocket [chemical binding]; other site 693978004460 K-X-D-G motif; other site 693978004461 catalytic site [active] 693978004462 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 693978004463 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 693978004464 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 693978004465 Dimer interface [polypeptide binding]; other site 693978004466 BRCT sequence motif; other site 693978004467 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; cl17244 693978004468 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 693978004469 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; cl17244 693978004470 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 693978004471 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 693978004472 putative substrate translocation pore; other site 693978004473 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 693978004474 Thioredoxin-like domain; Region: Thioredoxin_2; pfam13098 693978004475 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 693978004476 active site 693978004477 Uncharacterized BCR, YitT family COG1284; Region: DUF161; pfam02588 693978004478 Protein of unknown function (DUF3109); Region: DUF3109; pfam11307 693978004479 K+ potassium transporter; Region: K_trans; pfam02705 693978004480 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 693978004481 metal binding site 2 [ion binding]; metal-binding site 693978004482 putative DNA binding helix; other site 693978004483 metal binding site 1 [ion binding]; metal-binding site 693978004484 dimer interface [polypeptide binding]; other site 693978004485 structural Zn2+ binding site [ion binding]; other site 693978004486 OstA-like protein; Region: OstA; cl00844 693978004487 OstA-like protein; Region: OstA_2; pfam13100 693978004488 OstA-like protein; Region: OstA; cl00844 693978004489 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 693978004490 Ornithine/acetylornithine aminotransferase [Amino acid transport and metabolism]; Region: ArgD; COG4992 693978004491 inhibitor-cofactor binding pocket; inhibition site 693978004492 pyridoxal 5'-phosphate binding site [chemical binding]; other site 693978004493 catalytic residue [active] 693978004494 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 693978004495 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 693978004496 NAD synthase [Coenzyme metabolism]; Region: NadE; COG0171 693978004497 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 693978004498 homodimer interface [polypeptide binding]; other site 693978004499 NAD binding pocket [chemical binding]; other site 693978004500 ATP binding pocket [chemical binding]; other site 693978004501 Mg binding site [ion binding]; other site 693978004502 active-site loop [active] 693978004503 gliding motility-associated lipoprotein GldB; Region: GldB_lipo; TIGR03514 693978004504 gliding motility-associated protein GldC; Region: GldC; TIGR03515 693978004505 Telomere recombination; Region: Sua5_yciO_yrdC; pfam01300 693978004506 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 693978004507 trimer interface [polypeptide binding]; other site 693978004508 active site 693978004509 substrate binding site [chemical binding]; other site 693978004510 CoA binding site [chemical binding]; other site 693978004511 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 693978004512 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 693978004513 dimer interface [polypeptide binding]; other site 693978004514 pyridoxal 5'-phosphate binding site [chemical binding]; other site 693978004515 catalytic residue [active] 693978004516 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 693978004517 Smr domain; Region: Smr; cl02619 693978004518 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 693978004519 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 693978004520 ATP-binding cassette domain of glucan transporter and related proteins, subfamily C; Region: ABCC_Glucan_exporter_like; cd03254 693978004521 Walker A/P-loop; other site 693978004522 ATP binding site [chemical binding]; other site 693978004523 Q-loop/lid; other site 693978004524 ABC transporter signature motif; other site 693978004525 Walker B; other site 693978004526 D-loop; other site 693978004527 H-loop/switch region; other site 693978004528 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 693978004529 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 693978004530 Walker A/P-loop; other site 693978004531 ATP binding site [chemical binding]; other site 693978004532 Q-loop/lid; other site 693978004533 ABC transporter signature motif; other site 693978004534 Walker B; other site 693978004535 D-loop; other site 693978004536 H-loop/switch region; other site 693978004537 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 693978004538 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 693978004539 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 693978004540 dimer interface [polypeptide binding]; other site 693978004541 motif 1; other site 693978004542 active site 693978004543 motif 2; other site 693978004544 motif 3; other site 693978004545 Domain of unknown function (DUF4251); Region: DUF4251; pfam14059 693978004546 Coproporphyrinogen III oxidase and related Fe-S oxidoreductases [Coenzyme metabolism]; Region: HemN; COG0635 693978004547 HemN C-terminal domain; Region: HemN_C; pfam06969 693978004548 Protein of unknown function (DUF3308); Region: DUF3308; pfam11751 693978004549 Pantoate-beta-alanine ligase; Region: PanC; cd00560 693978004550 pantoate--beta-alanine ligase; Region: panC; TIGR00018 693978004551 active site 693978004552 ATP-binding site [chemical binding]; other site 693978004553 pantoate-binding site; other site 693978004554 HXXH motif; other site 693978004555 Starch synthase catalytic domain; Region: Glyco_transf_5; pfam08323 693978004556 Domain of unknown function (DUF4270); Region: DUF4270; pfam14092 693978004557 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 693978004558 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 693978004559 glutaminase active site [active] 693978004560 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 693978004561 dimer interface [polypeptide binding]; other site 693978004562 active site 693978004563 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 693978004564 dimer interface [polypeptide binding]; other site 693978004565 active site 693978004566 gliding motility-associated lipoprotein GldK; Region: GldK; TIGR03525 693978004567 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 693978004568 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 693978004569 gliding motility-associated protein GldL; Region: GldL_gliding; TIGR03513 693978004570 gliding motility-associated protein GldM; Region: GldM_gliding; TIGR03517 693978004571 GldM N-terminal domain; Region: GldM_N; pfam12081 693978004572 GldM C-terminal domain; Region: GldM_C; pfam12080 693978004573 gliding motility associated protien GldN; Region: GldN; TIGR03523 693978004574 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 693978004575 TonB-dependent receptor; Region: TonB-Xanth-Caul; TIGR01782 693978004576 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 693978004577 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; cl17244 693978004578 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 693978004579 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 693978004580 active site 693978004581 phosphorylation site [posttranslational modification] 693978004582 intermolecular recognition site; other site 693978004583 dimerization interface [polypeptide binding]; other site 693978004584 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 693978004585 DNA binding site [nucleotide binding] 693978004586 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 693978004587 dimer interface [polypeptide binding]; other site 693978004588 phosphorylation site [posttranslational modification] 693978004589 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 693978004590 ATP binding site [chemical binding]; other site 693978004591 Mg2+ binding site [ion binding]; other site 693978004592 G-X-G motif; other site 693978004593 YceI-like domain; Region: YceI; pfam04264 693978004594 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 693978004595 CarD-like/TRCF domain; Region: CarD_CdnL_TRCF; pfam02559 693978004596 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 693978004597 ATP binding site [chemical binding]; other site 693978004598 putative Mg++ binding site [ion binding]; other site 693978004599 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 693978004600 nucleotide binding region [chemical binding]; other site 693978004601 ATP-binding site [chemical binding]; other site 693978004602 TRCF domain; Region: TRCF; pfam03461 693978004603 Uncharacterized protein family (UPF0081); Region: UPF0081; pfam03652 693978004604 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 693978004605 active site 693978004606 catalytic residues [active] 693978004607 metal binding site [ion binding]; metal-binding site 693978004608 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 693978004609 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 693978004610 homodimer interface [polypeptide binding]; other site 693978004611 metal binding site [ion binding]; metal-binding site 693978004612 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 693978004613 homodimer interface [polypeptide binding]; other site 693978004614 active site 693978004615 putative chemical substrate binding site [chemical binding]; other site 693978004616 metal binding site [ion binding]; metal-binding site 693978004617 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 693978004618 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 693978004619 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 693978004620 shikimate binding site; other site 693978004621 NAD(P) binding site [chemical binding]; other site 693978004622 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 693978004623 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 693978004624 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 693978004625 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 693978004626 catalytic motif [active] 693978004627 Zn binding site [ion binding]; other site 693978004628 RibD C-terminal domain; Region: RibD_C; cl17279 693978004629 Response regulator receiver domain; Region: Response_reg; pfam00072 693978004630 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 693978004631 active site 693978004632 phosphorylation site [posttranslational modification] 693978004633 intermolecular recognition site; other site 693978004634 dimerization interface [polypeptide binding]; other site 693978004635 PglZ domain; Region: PglZ; pfam08665 693978004636 Pirin-related protein [General function prediction only]; Region: COG1741 693978004637 Pirin; Region: Pirin; pfam02678 693978004638 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 693978004639 RNA polymerase sigma factor, sigma-70 family; Region: sigma70-ECF; TIGR02937 693978004640 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 693978004641 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 693978004642 DNA binding residues [nucleotide binding] 693978004643 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 693978004644 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 693978004645 Protease Inhibitor Ecotin; homodimeric protease inhibitor; Region: Ecotin; cl00178 693978004646 secondary substrate binding site; other site 693978004647 primary substrate binding site; other site 693978004648 inhibition loop; other site 693978004649 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 693978004650 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 693978004651 Walker A/P-loop; other site 693978004652 ATP binding site [chemical binding]; other site 693978004653 Q-loop/lid; other site 693978004654 ABC transporter signature motif; other site 693978004655 Walker B; other site 693978004656 D-loop; other site 693978004657 H-loop/switch region; other site 693978004658 nitrous oxide reductase family maturation protein NosD; Region: NosD_copper_fam; TIGR04247 693978004659 NosL; Region: NosL; cl01769 693978004660 nitrous-oxide reductase, Sec-dependent; Region: nitrous_NosZ_Gp; TIGR04246 693978004661 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 693978004662 Cytochrome c; Region: Cytochrom_C; pfam00034 693978004663 Cytochrome c; Region: Cytochrom_C; cl11414 693978004664 Domain of unknown function DUF77; Region: DUF77; cl00307 693978004665 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 693978004666 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 693978004667 ligand binding site [chemical binding]; other site 693978004668 flexible hinge region; other site 693978004669 iron-sulfur cluster repair di-iron protein; Region: FeS_repair_RIC; TIGR03652 693978004670 Domain of Unknown function (DUF542); Region: ScdA_N; pfam04405 693978004671 Hemerythrin-like domain; Region: Hr-like; cd12108 693978004672 Rrf2 family protein; Region: rrf2_super; TIGR00738 693978004673 Transcriptional regulator; Region: Rrf2; pfam02082 693978004674 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 693978004675 Membrane-associated lipoprotein involved in thiamine biosynthesis [Coenzyme metabolism]; Region: ApbE; COG1477 693978004676 ApbE family; Region: ApbE; pfam02424 693978004677 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 693978004678 Flavodoxin; Region: Flavodoxin_1; pfam00258 693978004679 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 693978004680 FAD binding pocket [chemical binding]; other site 693978004681 conserved FAD binding motif [chemical binding]; other site 693978004682 phosphate binding motif [ion binding]; other site 693978004683 beta-alpha-beta structure motif; other site 693978004684 NAD binding pocket [chemical binding]; other site 693978004685 Predicted periplasmic protein (DUF2271); Region: DUF2271; pfam10029 693978004686 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 693978004687 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 693978004688 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 693978004689 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 693978004690 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 693978004691 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 693978004692 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 693978004693 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 693978004694 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 693978004695 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; cl17244 693978004696 Thioesterase domain; Region: Thioesterase; pfam00975 693978004697 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 693978004698 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 693978004699 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 693978004700 Predicted transcriptional regulators [Transcription]; Region: COG1695 693978004701 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 693978004702 putative Zn2+ binding site [ion binding]; other site 693978004703 putative DNA binding site [nucleotide binding]; other site 693978004704 PspC domain; Region: PspC; pfam04024 693978004705 Invasion gene expression up-regulator, SirB; Region: SirB; cl01184 693978004706 Lysophospholipid acyltransferases (LPLATs) of glycerophospholipid biosynthesis; Region: LPLAT; cl17185 693978004707 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 693978004708 putative acyl-acceptor binding pocket; other site 693978004709 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 693978004710 CoenzymeA binding site [chemical binding]; other site 693978004711 subunit interaction site [polypeptide binding]; other site 693978004712 PHB binding site; other site 693978004713 chorismate binding enzyme; Region: Chorismate_bind; cl10555 693978004714 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 693978004715 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 693978004716 ligand binding site [chemical binding]; other site 693978004717 flexible hinge region; other site 693978004718 helix_turn_helix, cAMP Regulatory protein C-terminus; DNA binding domain of prokaryotic regulatory proteins belonging to the catabolite activator protein family; Region: HTH_CRP; cd00092 693978004719 non-specific DNA interactions [nucleotide binding]; other site 693978004720 DNA binding site [nucleotide binding] 693978004721 sequence specific DNA binding site [nucleotide binding]; other site 693978004722 putative cAMP binding site [chemical binding]; other site 693978004723 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 693978004724 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 693978004725 Walker A/P-loop; other site 693978004726 ATP binding site [chemical binding]; other site 693978004727 Q-loop/lid; other site 693978004728 ABC transporter signature motif; other site 693978004729 Walker B; other site 693978004730 D-loop; other site 693978004731 H-loop/switch region; other site 693978004732 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 693978004733 thiamine pyrophosphokinase; Region: thi_PPkinase; TIGR01378 693978004734 Thiamine pyrophosphokinase; Region: TPK; cd07995 693978004735 active site 693978004736 dimerization interface [polypeptide binding]; other site 693978004737 thiamine binding site [chemical binding]; other site 693978004738 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 693978004739 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Arginine Decarboxylase; Region: PLPDE_III_ADC; cd06830 693978004740 dimer interface [polypeptide binding]; other site 693978004741 active site 693978004742 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 693978004743 catalytic residues [active] 693978004744 substrate binding site [chemical binding]; other site 693978004745 Agmatinase and related proteins; Region: Agmatinase-like_2; cd11593 693978004746 putative active site [active] 693978004747 Mn binding site [ion binding]; other site 693978004748 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 693978004749 Protein of unknown function (DUF419); Region: DUF419; pfam04237 693978004750 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 693978004751 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 693978004752 active site 693978004753 Riboflavin kinase; Region: Flavokinase; pfam01687 693978004754 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 693978004755 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 693978004756 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 693978004757 alpha subunit interaction interface [polypeptide binding]; other site 693978004758 Walker A motif; other site 693978004759 ATP binding site [chemical binding]; other site 693978004760 Walker B motif; other site 693978004761 inhibitor binding site; inhibition site 693978004762 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 693978004763 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 693978004764 gamma subunit interface [polypeptide binding]; other site 693978004765 LBP interface [polypeptide binding]; other site 693978004766 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 693978004767 active site 693978004768 multimer interface [polypeptide binding]; other site 693978004769 branched-chain amino acid aminotransferase; Provisional; Region: PRK13357 693978004770 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...; Region: PLPDE_IV; cl00224 693978004771 homodimer interface [polypeptide binding]; other site 693978004772 substrate-cofactor binding pocket; other site 693978004773 pyridoxal 5'-phosphate binding site [chemical binding]; other site 693978004774 catalytic residue [active] 693978004775 S-adenosyl-L-methionine-dependent methyltransferase; Region: Methyltransf_30; cl17711 693978004776 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 693978004777 ligand binding site [chemical binding]; other site 693978004778 active site 693978004779 UGI interface [polypeptide binding]; other site 693978004780 catalytic site [active] 693978004781 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 693978004782 UDP-N-acetylmuramate-alanine ligase [Cell envelope biogenesis, outer membrane]; Region: MurC; COG0773 693978004783 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 693978004784 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 693978004785 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 693978004786 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 693978004787 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 693978004788 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 693978004789 catalytic residue [active] 693978004790 Mannosyl-glycoprotein endo-beta-N-acetylglucosaminidase; Region: Glucosaminidase; pfam01832 693978004791 LysM domain; Region: LysM; pfam01476 693978004792 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 693978004793 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 693978004794 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 693978004795 inhibitor-cofactor binding pocket; inhibition site 693978004796 pyridoxal 5'-phosphate binding site [chemical binding]; other site 693978004797 catalytic residue [active] 693978004798 Dipeptidyl peptidase IV (DPP IV) N-terminal region; Region: DPPIV_N; pfam00930 693978004799 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 693978004800 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 693978004801 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 693978004802 putative hydrolase; Provisional; Region: PRK02113 693978004803 GAF domain-containing protein [Signal transduction mechanisms]; Region: COG1956 693978004804 GAF domain; Region: GAF_2; pfam13185 693978004805 Uncharacterized conserved protein [Function unknown]; Region: RtcB; COG1690 693978004806 The HIRAN protein (HIP116, Rad5p N-terminal) is found in the N-terminal regions of the SWI2/SNF2 proteins typified by HIP116 and Rad5p; Region: HIRAN; smart00910 693978004807 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]; Region: SSL2; COG1061 693978004808 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 693978004809 ATP binding site [chemical binding]; other site 693978004810 putative Mg++ binding site [ion binding]; other site 693978004811 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 693978004812 HsdM N-terminal domain; Region: HsdM_N; pfam12161 693978004813 Methyltransferase domain; Region: Methyltransf_26; pfam13659 693978004814 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 693978004815 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 693978004816 Type I restriction modification DNA specificity domain; Region: Methylase_S; pfam01420 693978004817 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 693978004818 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: HsdR; COG4096 693978004819 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 693978004820 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 693978004821 ATP binding site [chemical binding]; other site 693978004822 putative Mg++ binding site [ion binding]; other site 693978004823 Exonuclease-Endonuclease-Phosphatase domain; uncharacterized family 1; Region: EEP-1; cd09083 693978004824 putative catalytic site [active] 693978004825 putative metal binding site [ion binding]; other site 693978004826 putative phosphate binding site [ion binding]; other site 693978004827 Uncharacterized hypothetical proteins similar to the catalytic domains of Phosphoinositide-specific phospholipaseand Glycerophosphodiester phosphodiesterases; Region: PI-PLCc_GDPD_SF_unchar3; cd08577 693978004828 putative active site [active] 693978004829 catalytic site [active] 693978004830 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 693978004831 active site 693978004832 dimer interface [polypeptide binding]; other site 693978004833 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 693978004834 SusD family; Region: SusD; pfam07980 693978004835 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 693978004836 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 693978004837 Saccharomyces cerevisiae DCR2 phosphatase and related proteins, metallophosphatase domain; Region: MPP_Dcr2; cd07383 693978004838 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 693978004839 putative active site [active] 693978004840 putative metal binding site [ion binding]; other site 693978004841 domain in bacterial beta-glucosidases other glycosidases, glycosyltransferases, proteases, amidases, yeast adhesins, and bacterial toxins; Region: PA14; smart00758 693978004842 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 693978004843 putative substrate translocation pore; other site 693978004844 POT family; Region: PTR2; cl17359 693978004845 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 693978004846 2-deoxyribose-5-phosphate aldolase (DERA) of the DeoC family; Region: DeoC; cd00959 693978004847 intersubunit interface [polypeptide binding]; other site 693978004848 active site 693978004849 catalytic residue [active] 693978004850 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 693978004851 E3 interaction surface; other site 693978004852 lipoyl attachment site [posttranslational modification]; other site 693978004853 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 693978004854 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 693978004855 E3 interaction surface; other site 693978004856 lipoyl attachment site [posttranslational modification]; other site 693978004857 e3 binding domain; Region: E3_binding; pfam02817 693978004858 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 693978004859 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 693978004860 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 693978004861 tetramer interface [polypeptide binding]; other site 693978004862 TPP-binding site [chemical binding]; other site 693978004863 heterodimer interface [polypeptide binding]; other site 693978004864 phosphorylation loop region [posttranslational modification] 693978004865 Predicted transcriptional regulator [Transcription]; Region: COG2378 693978004866 WYL domain; Region: WYL; pfam13280 693978004867 amino acid transporter; Region: 2A0306; TIGR00909 693978004868 C-terminus of AA_permease; Region: AA_permease_C; pfam13906 693978004869 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 693978004870 TonB-linked outer membrane protein, SusC/RagA family; Region: OMP_RagA_SusC; TIGR04056 693978004871 TonB-dependent outer membrane receptor, SusC/RagA subfamily, signature region; Region: SusC_RagA_signa; TIGR04057 693978004872 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; cl17244 693978004873 Starch-binding associating with outer membrane; Region: SusD-like_3; pfam14322 693978004874 starch binding outer membrane protein SusD; Region: SusD; cl17845 693978004875 Domain of unknown function (DUF4302); Region: DUF4302; pfam14135 693978004876 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 693978004877 Imelysin; Region: Peptidase_M75; pfam09375 693978004878 Vitamin K-dependent gamma-carboxylase; Region: VKG_Carbox; cl02773 693978004879 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 693978004880 N-terminal plug; other site 693978004881 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 693978004882 ligand-binding site [chemical binding]; other site 693978004883 Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily. LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond...; Region: LRR_RI; cl15309 693978004884 Substrate binding site [chemical binding]; other site 693978004885 Leucine Rich repeats (2 copies); Region: LRR_4; pfam12799 693978004886 Por secretion system C-terminal sorting domain; Region: Por_Secre_tail; TIGR04183 693978004887 DNA-binding protein, histone-like, putative; Region: HU_rel; TIGR01201 693978004888 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 693978004889 TraB family; Region: TraB; cl12050 693978004890 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 693978004891 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 693978004892 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 693978004893 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 693978004894 DinB superfamily; Region: DinB_2; pfam12867 693978004895 MoxR-like ATPases [General function prediction only]; Region: COG0714 693978004896 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 693978004897 Walker A motif; other site 693978004898 ATP binding site [chemical binding]; other site 693978004899 Walker B motif; other site 693978004900 arginine finger; other site 693978004901 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 693978004902 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 693978004903 metal ion-dependent adhesion site (MIDAS); other site 693978004904 Oxygen tolerance; Region: BatD; pfam13584 693978004905 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 693978004906 metal ion-dependent adhesion site (MIDAS); other site 693978004907 von Willebrand factor type A domain; Region: VWA_2; pfam13519 693978004908 metal ion-dependent adhesion site (MIDAS); other site 693978004909 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 693978004910 binding surface 693978004911 Tetratricopeptide repeat; Region: TPR_12; pfam13424 693978004912 TPR motif; other site 693978004913 TPR repeat; Region: TPR_11; pfam13414 693978004914 Oxygen tolerance; Region: BatD; pfam13584 693978004915 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 693978004916 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 693978004917 active site 693978004918 dimer interface [polypeptide binding]; other site 693978004919 metal binding site [ion binding]; metal-binding site 693978004920 Proline dehydrogenase; Region: Pro_dh; cl03282 693978004921 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 693978004922 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 693978004923 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 693978004924 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 693978004925 substrate binding pocket [chemical binding]; other site 693978004926 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 693978004927 B12 binding site [chemical binding]; other site 693978004928 cobalt ligand [ion binding]; other site 693978004929 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 693978004930 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 693978004931 FAD binding site [chemical binding]; other site 693978004932 3-oxoacyl-(acyl-carrier-protein) synthase [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: FabB; COG0304 693978004933 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 693978004934 active site 693978004935 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 693978004936 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 693978004937 catalytic residue [active] 693978004938 Dethiobiotin synthetase [Coenzyme metabolism]; Region: BioD; COG0132 693978004939 AAA domain; Region: AAA_26; pfam13500 693978004940 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 693978004941 adenosylmethionine-8-amino-7-oxononanoate transaminase; Region: bioA; TIGR00508 693978004942 inhibitor-cofactor binding pocket; inhibition site 693978004943 pyridoxal 5'-phosphate binding site [chemical binding]; other site 693978004944 catalytic residue [active] 693978004945 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 693978004946 Adenine-specific DNA methylase [DNA replication, recombination, and repair]; Region: COG3392 693978004947 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 693978004948 The C-terminal domain of uncharacterized bacterial proteins; Region: Bvu_2165_C_like; cd12843 693978004949 16S rRNA methyltransferase B; Provisional; Region: PRK14902 693978004950 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 693978004951 S-adenosylmethionine binding site [chemical binding]; other site 693978004952 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 693978004953 tRNA adenylyltransferase; Region: tRNA_CCA_actino; TIGR02692 693978004954 active site 693978004955 NTP binding site [chemical binding]; other site 693978004956 metal binding triad [ion binding]; metal-binding site 693978004957 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 693978004958 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 693978004959 Zn2+ binding site [ion binding]; other site 693978004960 Mg2+ binding site [ion binding]; other site 693978004961 tRNA nucleotidyltransferase domain 2 putative; Region: tRNA_NucTran2_2; pfam13735 693978004962 aconitate hydratase, mitochondrial; Region: aconitase_mito; TIGR01340 693978004963 Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: AcnA_Mitochondrial; cd01584 693978004964 substrate binding site [chemical binding]; other site 693978004965 ligand binding site [chemical binding]; other site 693978004966 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 693978004967 substrate binding site [chemical binding]; other site 693978004968 GLPGLI family protein; Region: GLPGLI; TIGR01200 693978004969 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 693978004970 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 693978004971 GLPGLI family protein; Region: GLPGLI; TIGR01200 693978004972 Copper chaperone [Inorganic ion transport and metabolism]; Region: CopZ; COG2608 693978004973 metal-binding site [ion binding] 693978004974 Protein of unknown function (DUF3347); Region: DUF3347; pfam11827 693978004975 Helix-turn-helix domain; Region: HTH_18; pfam12833 693978004976 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 693978004977 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 693978004978 metal-binding site [ion binding]