-- dump date 20140618_190723 -- class Genbank::misc_feature -- table misc_feature_note -- id note 980514000001 Initiator Replication protein; Region: Rep_3; pfam01051 980514000002 Helix-turn-helix domain; Region: HTH_17; cl17695 980514000003 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 980514000004 Sel1-like repeats; Region: SEL1; smart00671 980514000005 Protein of unknown function (DUF497); Region: DUF497; pfam04365 980514000006 Domain of unknown function (DUF4415); Region: DUF4415; pfam14384 980514000007 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 980514000008 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 980514000009 putative septicolysin, cholesterol-dependent cytolysin family and related proteins; Region: septicolysin_like; cd12208 980514000010 oligomer interface [polypeptide binding]; other site 980514000011 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 980514000012 Serine Recombinase family, catalytic domain; a DNA binding domain may be present either N- or C-terminal to the catalytic domain. These enzymes perform site-specific recombination of DNA molecules by a concerted, four-strand cleavage and rejoining...; Region: Ser_Recombinase; cl02788 980514000013 catalytic residues [active] 980514000014 catalytic nucleophile [active] 980514000015 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 980514000016 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 980514000017 N-acetyl-D-glucosamine binding site [chemical binding]; other site 980514000018 catalytic residue [active] 980514000019 TraL protein; Region: TraL; cl06278 980514000020 TraE protein; Region: TraE; cl05060 980514000021 TraK protein; Region: TraK; pfam06586 980514000022 conjugal transfer protein TraK; Provisional; Region: PRK13736; cl05878 980514000023 Protein of unknown function (DUF1510); Region: DUF1510; pfam07423 980514000024 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 980514000025 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 980514000026 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 980514000027 dimerization domain [polypeptide binding]; other site 980514000028 dimer interface [polypeptide binding]; other site 980514000029 catalytic residues [active] 980514000030 Protein of unknown function (DUF1471); Region: DUF1471; cl11507 980514000031 type IV conjugative transfer system lipoprotein TraV; Region: TraV; TIGR02747 980514000032 Type IV conjugative transfer system lipoprotein (TraV); Region: TraV; pfam09676 980514000033 type-IV secretion system protein TraC; Region: TraC-F-type; TIGR02746 980514000034 F pilus assembly Type-IV secretion system for plasmid transfer; Region: TraC_F_IV; pfam11130 980514000035 conjugative transfer signal peptidase TraF; Region: TraF_Ti; TIGR02771 980514000036 conjugal transfer pilin processing protease TraF; Provisional; Region: PRK13838 980514000037 Sex factor F TraW protein N terminal; Region: TraW_N; cl10149 980514000038 TraU protein; Region: TraU; pfam06834 980514000039 Type-F conjugative transfer system pilin assembly protein; Region: TrbC_Ftype; pfam09673 980514000040 conjugal transfer mating pair stabilization protein TraN; Reviewed; Region: PRK12355 980514000041 F plasmid transfer operon protein; Region: TraF; pfam13728 980514000042 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 980514000043 catalytic residues [active] 980514000044 Conjugative relaxosome accessory transposon protein; Region: TraH; pfam06122 980514000045 TraG-like protein, N-terminal region; Region: TraG_N; pfam07916 980514000046 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 980514000047 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 980514000048 active site 980514000049 DNA binding site [nucleotide binding] 980514000050 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 980514000051 Replicase family; Region: Replicase; pfam03090 980514000052 Primase C terminal 1 (PriCT-1); Region: PriCT_1; pfam08708 980514000053 Homeodomain-like domain; Region: HTH_23; pfam13384 980514000054 Zeta toxin; Region: Zeta_toxin; pfam06414 980514000055 Protein of unknown function (DUF1173); Region: DUF1173; pfam06666 980514000056 Staphylococcal nuclease homologues; Region: SNc; smart00318 980514000057 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cd00175 980514000058 Catalytic site; other site 980514000059 H-NS histone family; Region: Histone_HNS; pfam00816 980514000060 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 980514000061 Protein of unknown function (DUF2786); Region: DUF2786; pfam10979 980514000062 Type I restriction-modification system methyltransferase subunit [Defense mechanisms]; Region: HsdM; COG0286 980514000063 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 980514000064 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 980514000065 P-loop; other site 980514000066 Magnesium ion binding site [ion binding]; other site 980514000067 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 980514000068 Magnesium ion binding site [ion binding]; other site 980514000069 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 980514000070 ParB-like nuclease domain; Region: ParB; smart00470 980514000071 KorB domain; Region: KorB; pfam08535 980514000072 Toxic anion resistance protein (TelA); Region: TelA; pfam05816 980514000073 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 980514000074 non-specific DNA binding site [nucleotide binding]; other site 980514000075 salt bridge; other site 980514000076 sequence-specific DNA binding site [nucleotide binding]; other site 980514000077 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 980514000078 DnaJ molecular chaperone homology domain; Region: DnaJ; smart00271 980514000079 HSP70 interaction site [polypeptide binding]; other site 980514000080 TrwC relaxase; Region: TrwC; pfam08751 980514000081 conjugative relaxase domain, TrwC/TraI family; Region: relax_trwC; TIGR02686 980514000082 AAA domain; Region: AAA_30; pfam13604 980514000083 Family description; Region: UvrD_C_2; pfam13538 980514000084 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 980514000085 Type IV secretion-system coupling protein DNA-binding domain; Region: TrwB_AAD_bind; pfam10412 980514000086 Walker A motif; other site 980514000087 ATP binding site [chemical binding]; other site 980514000088 Walker B motif; other site 980514000089 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 980514000090 Helix-turn-helix domain; Region: HTH_38; pfam13936 980514000091 Homeodomain-like domain; Region: HTH_32; pfam13565 980514000092 Integrase core domain; Region: rve; pfam00665 980514000093 Integrase core domain; Region: rve_3; cl15866 980514000094 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 980514000095 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 980514000096 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 980514000097 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 980514000098 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 980514000099 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 980514000100 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 980514000101 ABC transporter; Region: ABC_tran_2; pfam12848 980514000102 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 980514000103 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 980514000104 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 980514000105 Cytochrome b562; Region: Cytochrom_B562; pfam07361 980514000106 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 980514000107 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 980514000108 ATP binding site [chemical binding]; other site 980514000109 Mg2+ binding site [ion binding]; other site 980514000110 G-X-G motif; other site 980514000111 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 980514000112 anchoring element; other site 980514000113 dimer interface [polypeptide binding]; other site 980514000114 ATP binding site [chemical binding]; other site 980514000115 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 980514000116 active site 980514000117 putative metal-binding site [ion binding]; other site 980514000118 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 980514000119 recombination protein F; Reviewed; Region: recF; PRK00064 980514000120 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 980514000121 Walker A/P-loop; other site 980514000122 ATP binding site [chemical binding]; other site 980514000123 Q-loop/lid; other site 980514000124 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 980514000125 ABC transporter signature motif; other site 980514000126 Walker B; other site 980514000127 D-loop; other site 980514000128 H-loop/switch region; other site 980514000129 DNA polymerase III subunit beta; Validated; Region: PRK05643 980514000130 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 980514000131 putative DNA binding surface [nucleotide binding]; other site 980514000132 dimer interface [polypeptide binding]; other site 980514000133 beta-clamp/clamp loader binding surface; other site 980514000134 beta-clamp/translesion DNA polymerase binding surface; other site 980514000135 DnaA N-terminal domain; Region: DnaA_N; pfam11638 980514000136 chromosomal replication initiator protein DnaA; Region: DnaA; TIGR00362 980514000137 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 980514000138 Walker A motif; other site 980514000139 ATP binding site [chemical binding]; other site 980514000140 Walker B motif; other site 980514000141 arginine finger; other site 980514000142 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 980514000143 DnaA box-binding interface [nucleotide binding]; other site 980514000144 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 980514000145 Ribonuclease P; Region: Ribonuclease_P; pfam00825 980514000146 hypothetical protein; Provisional; Region: PRK14386 980514000147 membrane protein insertase; Provisional; Region: PRK01318 980514000148 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 980514000149 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 980514000150 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 980514000151 trmE is a tRNA modification GTPase; Region: trmE; cd04164 980514000152 G1 box; other site 980514000153 GTP/Mg2+ binding site [chemical binding]; other site 980514000154 Switch I region; other site 980514000155 G2 box; other site 980514000156 Switch II region; other site 980514000157 G3 box; other site 980514000158 G4 box; other site 980514000159 G5 box; other site 980514000160 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 980514000161 Transcriptional regulators RcnR and FrmR, and related domains; this domain family was previously known as part of DUF156; Region: RcnR-FrmR-like_DUF156; cd10153 980514000162 putative metal binding site [ion binding]; other site 980514000163 putative homodimer interface [polypeptide binding]; other site 980514000164 putative homotetramer interface [polypeptide binding]; other site 980514000165 putative homodimer-homodimer interface [polypeptide binding]; other site 980514000166 putative allosteric switch controlling residues; other site 980514000167 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 980514000168 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 980514000169 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 980514000170 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 980514000171 dimerization domain [polypeptide binding]; other site 980514000172 dimer interface [polypeptide binding]; other site 980514000173 catalytic residues [active] 980514000174 Predicted membrane protein [Function unknown]; Region: COG2261 980514000175 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 980514000176 active site 980514000177 guanine deaminase; Provisional; Region: PRK09228 980514000178 Guanine deaminase (GDEase). Guanine deaminase is an aminohydrolase responsible for the conversion of guanine to xanthine and ammonia, the first step to utilize guanine as a nitrogen source. This reaction also removes the guanine base from the pool and...; Region: GDEase; cd01303 980514000179 active site 980514000180 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 980514000181 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 980514000182 [2Fe-2S] cluster binding site [ion binding]; other site 980514000183 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 980514000184 hydrophobic ligand binding site; other site 980514000185 Glutathionylspermidine synthase [Amino acid transport and metabolism]; Region: Gsp; COG0754 980514000186 integral membrane protein, TerC family; Region: R_switched_Alx; TIGR03718 980514000187 PAP2_like proteins, BcrC_like subfamily. Several members of this family have been annotated as bacitracin transport permeases, as it was suspected that they form the permease component of an ABC transporter system. It was shown, however, that BcrC from...; Region: PAP2_BcrC_like; cd03385 980514000188 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 980514000189 active site 980514000190 Bacterial low temperature requirement A protein (LtrA); Region: LtrA; cl01754 980514000191 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 980514000192 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 980514000193 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 980514000194 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 980514000195 Protein of unknown function, DUF486; Region: DUF486; cl01236 980514000196 AIR carboxylase; Region: AIRC; pfam00731 980514000197 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 980514000198 ATP-grasp domain; Region: ATP-grasp; pfam02222 980514000199 Transglycosylase SLT domain; Region: SLT_2; pfam13406 980514000200 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 980514000201 N-acetyl-D-glucosamine binding site [chemical binding]; other site 980514000202 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 980514000203 Dual-action HEIGH metallo-peptidase; Region: Peptidase_M57; pfam12388 980514000204 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 980514000205 active site 980514000206 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 980514000207 active site 980514000208 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 980514000209 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 980514000210 nucleotide binding site [chemical binding]; other site 980514000211 GrpE; Region: GrpE; pfam01025 980514000212 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 980514000213 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 980514000214 dimer interface [polypeptide binding]; other site 980514000215 Transcriptional regulator [Transcription]; Region: LysR; COG0583 980514000216 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514000217 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 980514000218 putative effector binding pocket; other site 980514000219 dimerization interface [polypeptide binding]; other site 980514000220 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 980514000221 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 980514000222 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 980514000223 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 980514000224 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 980514000225 substrate binding site [chemical binding]; other site 980514000226 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 980514000227 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 980514000228 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 980514000229 Predicted flavoprotein [General function prediction only]; Region: COG0431 980514000230 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 980514000231 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 980514000232 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 980514000233 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 980514000234 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 980514000235 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 980514000236 active site 980514000237 HIGH motif; other site 980514000238 nucleotide binding site [chemical binding]; other site 980514000239 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 980514000240 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 980514000241 active site 980514000242 KMSKS motif; other site 980514000243 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 980514000244 tRNA binding surface [nucleotide binding]; other site 980514000245 anticodon binding site; other site 980514000246 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 980514000247 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 980514000248 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 980514000249 active site 980514000250 Riboflavin kinase; Region: Flavokinase; smart00904 980514000251 Tellurite resistance protein and related permeases [Inorganic ion transport and metabolism]; Region: TehA; COG1275 980514000252 Tellurite-resistance/Dicarboxylate Transporter (TDT) family includes sulfite sensitivity protein (sulfite efflux pump; SSU1); Region: TDT_SSU1; cd09318 980514000253 gating phenylalanine in ion channel; other site 980514000254 Phosphorylase superfamily; Region: PNP_UDP_1; cl00303 980514000255 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 980514000256 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 980514000257 YcdC-like protein, C-terminal region; Region: TetR_C_3; pfam08362 980514000258 aliphatic sulfonates transport ATP-binding subunit; Provisional; Region: ssuB; PRK11247 980514000259 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 980514000260 Walker A/P-loop; other site 980514000261 ATP binding site [chemical binding]; other site 980514000262 Q-loop/lid; other site 980514000263 ABC transporter signature motif; other site 980514000264 Walker B; other site 980514000265 D-loop; other site 980514000266 H-loop/switch region; other site 980514000267 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 980514000268 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 980514000269 putative PBP binding loops; other site 980514000270 dimer interface [polypeptide binding]; other site 980514000271 ABC-ATPase subunit interface; other site 980514000272 alkanesulfonate monooxygenase; Provisional; Region: PRK00719 980514000273 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 980514000274 active site 980514000275 dimer interface [polypeptide binding]; other site 980514000276 non-prolyl cis peptide bond; other site 980514000277 insertion regions; other site 980514000278 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 980514000279 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 980514000280 substrate binding pocket [chemical binding]; other site 980514000281 membrane-bound complex binding site; other site 980514000282 hinge residues; other site 980514000283 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 980514000284 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 980514000285 substrate binding pocket [chemical binding]; other site 980514000286 membrane-bound complex binding site; other site 980514000287 hinge residues; other site 980514000288 N-acetylglutamate synthase; Validated; Region: PRK05279 980514000289 AAK_NAGS-ABP: N-acetylglutamate (NAG) kinase-like domain of the NAG Synthase (NAGS) of the arginine-biosynthesis pathway (ABP) found in gamma- and beta-proteobacteria and higher plant chloroplasts. Domain architecture of these NAGS consisted of an...; Region: AAK_NAGS-ABP; cd04237 980514000290 putative nucleotide binding site [chemical binding]; other site 980514000291 putative substrate binding site [chemical binding]; other site 980514000292 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 980514000293 Coenzyme A binding pocket [chemical binding]; other site 980514000294 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 980514000295 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 980514000296 putative oxoacyl-(acyl carrier protein) reductase; Provisional; Region: PRK08945 980514000297 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 980514000298 NAD(P) binding site [chemical binding]; other site 980514000299 active site 980514000300 phosphoglycolate phosphatase; Provisional; Region: PRK13222 980514000301 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 980514000302 active site 980514000303 motif I; other site 980514000304 motif II; other site 980514000305 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 980514000306 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 980514000307 S-adenosylmethionine binding site [chemical binding]; other site 980514000308 DsbA family, DsbA subfamily; DsbA is a monomeric thiol disulfide oxidoreductase protein containing a redox active CXXC motif imbedded in a TRX fold. It is involved in the oxidative protein folding pathway in prokaryotes, and is the strongest thiol...; Region: DsbA_DsbA; cd03019 980514000309 catalytic residues [active] 980514000310 hinge region; other site 980514000311 alpha helical domain; other site 980514000312 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 980514000313 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 980514000314 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 980514000315 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 980514000316 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_2; cd06216 980514000317 FMN reductase; Validated; Region: fre; PRK08051 980514000318 FAD binding pocket [chemical binding]; other site 980514000319 FAD binding motif [chemical binding]; other site 980514000320 phosphate binding motif [ion binding]; other site 980514000321 beta-alpha-beta structure motif; other site 980514000322 NAD binding pocket [chemical binding]; other site 980514000323 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 980514000324 catalytic loop [active] 980514000325 iron binding site [ion binding]; other site 980514000326 Fatty acid desaturase [Lipid metabolism]; Region: DesA; COG3239 980514000327 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 980514000328 putative di-iron ligands [ion binding]; other site 980514000329 ribonuclease PH; Reviewed; Region: rph; PRK00173 980514000330 Ribonuclease PH; Region: RNase_PH_bact; cd11362 980514000331 hexamer interface [polypeptide binding]; other site 980514000332 active site 980514000333 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 980514000334 Phosphoesterase family; Region: Phosphoesterase; pfam04185 980514000335 Domain of unknown function (DUF756); Region: DUF756; pfam05506 980514000336 Domain of unknown function (DUF756); Region: DUF756; pfam05506 980514000337 quinolinate phosphoribosyltransferase; Validated; Region: PRK09016 980514000338 Quinolinate phosphoribosyl transferase (QAPRTase or QPRTase), also called nicotinate-nucleotide pyrophosphorylase, is involved in the de novo synthesis of NAD in both prokaryotes and eukaryotes. It catalyses the reaction of quinolinic acid (QA) with...; Region: QPRTase; cd01572 980514000339 dimerization interface [polypeptide binding]; other site 980514000340 active site 980514000341 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 980514000342 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 980514000343 amidase catalytic site [active] 980514000344 Zn binding residues [ion binding]; other site 980514000345 substrate binding site [chemical binding]; other site 980514000346 Uncharacterized membrane protein, putative virulence factor [General function prediction only]; Region: MviN; COG0728 980514000347 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 980514000348 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 980514000349 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 980514000350 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 980514000351 Domain amino terminal to FKBP-type peptidyl-prolyl isomerase; Region: FKBP_N; pfam01346 980514000352 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 980514000353 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 980514000354 tyrosine kinase; Provisional; Region: PRK11519 980514000355 Chain length determinant protein; Region: Wzz; pfam02706 980514000356 G-rich domain on putative tyrosine kinase; Region: GNVR; pfam13807 980514000357 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 980514000358 Low molecular weight phosphatase family; Region: LMWPc; cd00115 980514000359 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 980514000360 active site 980514000361 Periplasmic protein involved in polysaccharide export, contains SLBB domain of b-grasp fold [Cell wall/membrane/envelope biogenesis]; Region: Wza; COG1596 980514000362 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 980514000363 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 980514000364 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 980514000365 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 980514000366 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 980514000367 Polysaccharide biosynthesis protein; Region: Polysacc_synt_2; pfam02719 980514000368 NAD(P) binding site [chemical binding]; other site 980514000369 homodimer interface [polypeptide binding]; other site 980514000370 substrate binding site [chemical binding]; other site 980514000371 active site 980514000372 aminotransferase, LLPSF_NHT_00031 family; Region: NHT_00031; TIGR04181 980514000373 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 980514000374 inhibitor-cofactor binding pocket; inhibition site 980514000375 pyridoxal 5'-phosphate binding site [chemical binding]; other site 980514000376 catalytic residue [active] 980514000377 UDP-N-acetyl-D-glucosamine 2-epimerase, UDP-hydrolysing; Region: NeuC_NnaA; TIGR03568 980514000378 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 980514000379 active site 980514000380 homodimer interface [polypeptide binding]; other site 980514000381 N-acetylneuraminate synthase; Region: NeuB_NnaB; TIGR03569 980514000382 NeuB family; Region: NeuB; pfam03102 980514000383 C-terminal SAF domain of sialic acid synthetase; Region: SAF_NeuB_like; cd11615 980514000384 NeuB binding interface [polypeptide binding]; other site 980514000385 putative substrate binding site [chemical binding]; other site 980514000386 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 980514000387 sugar O-acyltransferase, sialic acid O-acetyltransferase NeuD family; Region: NeuD_NnaD; TIGR03570 980514000388 putative trimer interface [polypeptide binding]; other site 980514000389 putative CoA binding site [chemical binding]; other site 980514000390 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domain associated with the NTP (Nucleotidyl transferase) domain downstream. CBS is a small domain originally identified in cystathionine beta-synthase and subsequently...; Region: CBS_pair_NTP_transferase_assoc; cd04607 980514000391 FOG: CBS domain [General function prediction only]; Region: COG0517 980514000392 NTP_trnasferase_like_2 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_2; cd06426 980514000393 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 980514000394 Substrate binding site; other site 980514000395 metal-binding site 980514000396 CMP-NeuAc_Synthase activates N-acetylneuraminic acid by adding CMP moiety; Region: CMP-NeuAc_Synthase; cd02513 980514000397 ligand binding site; other site 980514000398 tetramer interface; other site 980514000399 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 980514000400 Wzx, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_Wzx_like; cd13128 980514000401 Glycosyltransferase family 52; Region: Glyco_transf_52; pfam07922 980514000402 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 980514000403 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 980514000404 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 980514000405 This family is most closely related to the GT1 family of glycosyltransferases. AmSD in Erwinia amylovora has been shown to be involved in the biosynthesis of amylovoran, the acidic exopolysaccharide acting as a virulence factor. This enzyme may be...; Region: GT1_amsD_like; cd03820 980514000406 putative ADP-binding pocket [chemical binding]; other site 980514000407 Bacterial sugar transferase; Region: Bac_transf; pfam02397 980514000408 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 980514000409 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 980514000410 active site 980514000411 tetramer interface; other site 980514000412 Predicted UDP-glucose 6-dehydrogenase [Cell envelope biogenesis, outer membrane]; Region: Ugd; COG1004 980514000413 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 980514000414 UDP-glucose/GDP-mannose dehydrogenase family, UDP binding domain; Region: UDPG_MGDP_dh_C; pfam03720 980514000415 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 980514000416 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 980514000417 active site 980514000418 dimer interface [polypeptide binding]; other site 980514000419 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 980514000420 dimer interface [polypeptide binding]; other site 980514000421 active site 980514000422 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 980514000423 UDP-glucose 4-epimerase; Region: PLN02240 980514000424 NAD binding site [chemical binding]; other site 980514000425 homodimer interface [polypeptide binding]; other site 980514000426 active site 980514000427 substrate binding site [chemical binding]; other site 980514000428 phosphomannomutase CpsG; Provisional; Region: PRK15414 980514000429 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 980514000430 active site 980514000431 substrate binding site [chemical binding]; other site 980514000432 metal binding site [ion binding]; metal-binding site 980514000433 L-lactate permease; Provisional; Region: PRK10420 980514000434 glycolate transporter; Provisional; Region: PRK09695 980514000435 DNA-binding transcriptional repressor LldR; Provisional; Region: PRK10421 980514000436 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 980514000437 DNA-binding site [nucleotide binding]; DNA binding site 980514000438 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 980514000439 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 980514000440 Family of homologous FMN-dependent alpha-hydroxyacid oxidizing enzymes. This family occurs in both prokaryotes and eukaryotes. Members of this family include flavocytochrome b2 (FCB2), glycolate oxidase (GOX), lactate monooxygenase (LMO), mandelate...; Region: alpha_hydroxyacid_oxid_FMN; cd02809 980514000441 active site 980514000442 substrate binding site [chemical binding]; other site 980514000443 FMN binding site [chemical binding]; other site 980514000444 putative catalytic residues [active] 980514000445 D-lactate dehydrogenase; Provisional; Region: PRK11183 980514000446 FAD binding domain; Region: FAD_binding_4; pfam01565 980514000447 D-lactate dehydrogenase, membrane binding; Region: Lact-deh-memb; pfam09330 980514000448 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 980514000449 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 980514000450 pyridoxal 5'-phosphate binding site [chemical binding]; other site 980514000451 homodimer interface [polypeptide binding]; other site 980514000452 catalytic residue [active] 980514000453 Transcriptional regulators [Transcription]; Region: GntR; COG1802 980514000454 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 980514000455 DNA-binding site [nucleotide binding]; DNA binding site 980514000456 FCD domain; Region: FCD; pfam07729 980514000457 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 980514000458 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 980514000459 tetramer interface [polypeptide binding]; other site 980514000460 active site 980514000461 Mg2+/Mn2+ binding site [ion binding]; other site 980514000462 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 980514000463 methylcitrate synthase; Provisional; Region: PRK12351 980514000464 oxalacetate binding site [chemical binding]; other site 980514000465 citrylCoA binding site [chemical binding]; other site 980514000466 coenzyme A binding site [chemical binding]; other site 980514000467 catalytic triad [active] 980514000468 2-methylisocitrate dehydratase, Fe/S-dependent; Region: 2met_isocit_dHY; TIGR02333 980514000469 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 980514000470 substrate binding site [chemical binding]; other site 980514000471 ligand binding site [chemical binding]; other site 980514000472 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 980514000473 substrate binding site [chemical binding]; other site 980514000474 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 980514000475 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 980514000476 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 980514000477 dimer interface [polypeptide binding]; other site 980514000478 active site 980514000479 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 980514000480 NAD(P) binding site [chemical binding]; other site 980514000481 active site 980514000482 Predicted membrane protein [Function unknown]; Region: COG4420 980514000483 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 980514000484 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 980514000485 active site 980514000486 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 980514000487 SnoaL-like domain; Region: SnoaL_2; pfam12680 980514000488 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 980514000489 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 980514000490 N-terminal plug; other site 980514000491 ligand-binding site [chemical binding]; other site 980514000492 Predicted membrane protein [Function unknown]; Region: COG3503 980514000493 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 980514000494 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 980514000495 putative DNA binding site [nucleotide binding]; other site 980514000496 putative Zn2+ binding site [ion binding]; other site 980514000497 AsnC family; Region: AsnC_trans_reg; pfam01037 980514000498 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 980514000499 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 980514000500 mRNA stabilisation; Region: mRNA_stabil; pfam13929 980514000501 alanine racemase; Reviewed; Region: dadX; PRK03646 980514000502 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 980514000503 active site 980514000504 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 980514000505 substrate binding site [chemical binding]; other site 980514000506 catalytic residues [active] 980514000507 dimer interface [polypeptide binding]; other site 980514000508 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 980514000509 homotrimer interaction site [polypeptide binding]; other site 980514000510 putative active site [active] 980514000511 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 980514000512 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 980514000513 Transcriptional regulator [Transcription]; Region: LysR; COG0583 980514000514 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514000515 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 980514000516 dimerization interface [polypeptide binding]; other site 980514000517 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 980514000518 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 980514000519 tetrameric interface [polypeptide binding]; other site 980514000520 NAD binding site [chemical binding]; other site 980514000521 catalytic residues [active] 980514000522 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 980514000523 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 980514000524 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 980514000525 Domain of unknown function (DUF3448); Region: DUF3448; pfam11930 980514000526 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 980514000527 acyl-activating enzyme (AAE) consensus motif; other site 980514000528 AMP binding site [chemical binding]; other site 980514000529 active site 980514000530 CoA binding site [chemical binding]; other site 980514000531 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 980514000532 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 980514000533 active site 980514000534 enoyl-CoA hydratase; Provisional; Region: PRK05862 980514000535 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 980514000536 substrate binding site [chemical binding]; other site 980514000537 oxyanion hole (OAH) forming residues; other site 980514000538 trimer interface [polypeptide binding]; other site 980514000539 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 980514000540 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 980514000541 substrate binding site [chemical binding]; other site 980514000542 oxyanion hole (OAH) forming residues; other site 980514000543 trimer interface [polypeptide binding]; other site 980514000544 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 980514000545 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 980514000546 metabolite-proton symporter; Region: 2A0106; TIGR00883 980514000547 putative substrate translocation pore; other site 980514000548 Autoinducer synthetase; Region: Autoind_synth; cl17404 980514000549 DNA-binding transcriptional activator SdiA; Provisional; Region: PRK10188 980514000550 Autoinducer binding domain; Region: Autoind_bind; pfam03472 980514000551 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 980514000552 DNA binding residues [nucleotide binding] 980514000553 dimerization interface [polypeptide binding]; other site 980514000554 acyl-CoA synthetase; Validated; Region: PRK05850 980514000555 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 980514000556 acyl-activating enzyme (AAE) consensus motif; other site 980514000557 active site 980514000558 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 980514000559 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 980514000560 active site 980514000561 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 980514000562 Condensation domain; Region: Condensation; pfam00668 980514000563 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 980514000564 HxxPF-repeated domain; Region: HxxPF_rpt; pfam13745 980514000565 The adenylation domain of nonribosomal peptide synthetases (NRPS), including salinosporamide A polyketide synthase; Region: A_NRPS_Ta1_like; cd12116 980514000566 acyl-activating enzyme (AAE) consensus motif; other site 980514000567 AMP binding site [chemical binding]; other site 980514000568 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 980514000569 Thioesterase domains of type I polyketide synthases or non-ribosomal peptide synthetases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3319 980514000570 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 980514000571 hydrophobic ligand binding site; other site 980514000572 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 980514000573 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 980514000574 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 980514000575 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 980514000576 NAD(P) binding site [chemical binding]; other site 980514000577 active site 980514000578 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 980514000579 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 980514000580 catalytic site [active] 980514000581 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 980514000582 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 980514000583 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 980514000584 Invasion gene expression up-regulator, SirB; Region: SirB; cl01184 980514000585 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 980514000586 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 980514000587 P-loop; other site 980514000588 Magnesium ion binding site [ion binding]; other site 980514000589 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 980514000590 Magnesium ion binding site [ion binding]; other site 980514000591 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 980514000592 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 980514000593 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 980514000594 Predicted membrane protein [Function unknown]; Region: COG2259 980514000595 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4399 980514000596 GMP synthase; Reviewed; Region: guaA; PRK00074 980514000597 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 980514000598 AMP/PPi binding site [chemical binding]; other site 980514000599 candidate oxyanion hole; other site 980514000600 catalytic triad [active] 980514000601 potential glutamine specificity residues [chemical binding]; other site 980514000602 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 980514000603 ATP Binding subdomain [chemical binding]; other site 980514000604 Ligand Binding sites [chemical binding]; other site 980514000605 Dimerization subdomain; other site 980514000606 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 980514000607 active site 980514000608 NTP binding site [chemical binding]; other site 980514000609 metal binding triad [ion binding]; metal-binding site 980514000610 antibiotic binding site [chemical binding]; other site 980514000611 Domain of unknown function (DUF4111); Region: DUF4111; pfam13427 980514000612 Predicted transcriptional regulators [Transcription]; Region: COG1695 980514000613 Transcriptional regulator PadR-like family; Region: PadR; pfam03551 980514000614 Domain of Unknown Function with PDB structure (DUF3861); Region: DUF3861; pfam12977 980514000615 Pirin; Region: Pirin; pfam02678 980514000616 Pirin-related protein [General function prediction only]; Region: COG1741 980514000617 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 980514000618 OsmC-like protein; Region: OsmC; pfam02566 980514000619 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 980514000620 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 980514000621 C-terminal, alpha helical domain of GTT1-like Glutathione S-transferases; Region: GST_C_GTT1_like; cd03189 980514000622 putative N-terminal domain interface [polypeptide binding]; other site 980514000623 putative dimer interface [polypeptide binding]; other site 980514000624 putative substrate binding pocket (H-site) [chemical binding]; other site 980514000625 Sporulation related domain; Region: SPOR; pfam05036 980514000626 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 980514000627 Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]; Region: ArgS; COG0018 980514000628 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 980514000629 active site 980514000630 HIGH motif; other site 980514000631 nucleotide binding site [chemical binding]; other site 980514000632 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 980514000633 KMSK motif region; other site 980514000634 Anticodon-binding domain of class Ia aminoacyl tRNA synthetases and similar domains; Region: Anticodon_Ia_like; cl12020 980514000635 tRNA binding surface [nucleotide binding]; other site 980514000636 anticodon binding site; other site 980514000637 malate dehydrogenase; Provisional; Region: PRK13529 980514000638 Malic enzyme, N-terminal domain; Region: malic; pfam00390 980514000639 NAD(P) binding domain of malic enzyme (ME), subgroup 1; Region: NAD_bind_1_malic_enz; cd05312 980514000640 NAD(P) binding site [chemical binding]; other site 980514000641 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 980514000642 LysE type translocator; Region: LysE; cl00565 980514000643 ABC-type Mn2+/Zn2+ transport systems, permease components [Inorganic ion transport and metabolism]; Region: ZnuB; COG1108 980514000644 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 980514000645 ABC-ATPase subunit interface; other site 980514000646 dimer interface [polypeptide binding]; other site 980514000647 putative PBP binding regions; other site 980514000648 ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: ZnuC; COG1121 980514000649 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 980514000650 Walker A/P-loop; other site 980514000651 ATP binding site [chemical binding]; other site 980514000652 Q-loop/lid; other site 980514000653 ABC transporter signature motif; other site 980514000654 Walker B; other site 980514000655 D-loop; other site 980514000656 H-loop/switch region; other site 980514000657 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 980514000658 metal binding site 2 [ion binding]; metal-binding site 980514000659 putative DNA binding helix; other site 980514000660 metal binding site 1 [ion binding]; metal-binding site 980514000661 dimer interface [polypeptide binding]; other site 980514000662 structural Zn2+ binding site [ion binding]; other site 980514000663 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 980514000664 Periplasmic solute binding protein family; Region: SBP_bac_9; pfam01297 980514000665 intersubunit interface [polypeptide binding]; other site 980514000666 F0F1 ATP synthase subunit I; Validated; Region: PRK05760 980514000667 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 980514000668 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 980514000669 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 980514000670 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 980514000671 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 980514000672 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 980514000673 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 980514000674 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 980514000675 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 980514000676 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 980514000677 Walker A motif; other site 980514000678 ATP binding site [chemical binding]; other site 980514000679 Walker B motif; other site 980514000680 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 980514000681 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 980514000682 core domain interface [polypeptide binding]; other site 980514000683 delta subunit interface [polypeptide binding]; other site 980514000684 epsilon subunit interface [polypeptide binding]; other site 980514000685 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 980514000686 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 980514000687 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 980514000688 alpha subunit interaction interface [polypeptide binding]; other site 980514000689 Walker A motif; other site 980514000690 ATP binding site [chemical binding]; other site 980514000691 Walker B motif; other site 980514000692 inhibitor binding site; inhibition site 980514000693 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 980514000694 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 980514000695 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 980514000696 gamma subunit interface [polypeptide binding]; other site 980514000697 epsilon subunit interface [polypeptide binding]; other site 980514000698 LBP interface [polypeptide binding]; other site 980514000699 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 980514000700 catalytic residues [active] 980514000701 dimer interface [polypeptide binding]; other site 980514000702 Helix-turn-helix domain; Region: HTH_18; pfam12833 980514000703 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 980514000704 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 980514000705 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 980514000706 putative substrate translocation pore; other site 980514000707 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 980514000708 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 980514000709 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 980514000710 EamA-like transporter family; Region: EamA; pfam00892 980514000711 EamA-like transporter family; Region: EamA; pfam00892 980514000712 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 980514000713 DNA recombination-mediator protein A; Region: DNA_processg_A; pfam02481 980514000714 DNA protecting protein DprA; Region: dprA; TIGR00732 980514000715 Uncharacterized protein containing LysM domain [Function unknown]; Region: XkdP; COG1652 980514000716 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 980514000717 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 980514000718 active site 980514000719 catalytic residues [active] 980514000720 metal binding site [ion binding]; metal-binding site 980514000721 TonB-dependent copper receptor; Region: TonB-copper; TIGR01778 980514000722 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 980514000723 N-terminal plug; other site 980514000724 ligand-binding site [chemical binding]; other site 980514000725 Uncharacterized protein conserved in bacteria (DUF2236); Region: DUF2236; pfam09995 980514000726 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 980514000727 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 980514000728 Acetyltransferase (GNAT) domain; Region: Acetyltransf_9; pfam13527 980514000729 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 980514000730 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 980514000731 dimer interface [polypeptide binding]; other site 980514000732 pyridoxal 5'-phosphate binding site [chemical binding]; other site 980514000733 catalytic residue [active] 980514000734 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 980514000735 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 980514000736 N-acetyl-D-glucosamine binding site [chemical binding]; other site 980514000737 catalytic residue [active] 980514000738 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 980514000739 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 980514000740 Protein of unknown function (DUF2938); Region: DUF2938; pfam11158 980514000741 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 980514000742 Helix-Turn-Helix DNA binding domain of putative transcription regulators from the MerR superfamily; Region: HTH_MerR-like_sg6; cd04781 980514000743 DNA binding residues [nucleotide binding] 980514000744 putative dimer interface [polypeptide binding]; other site 980514000745 putative metal binding residues [ion binding]; other site 980514000746 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 980514000747 Class II Chelatase: a family of ATP-independent monomeric or homodimeric enzymes that catalyze the insertion of metal into protoporphyrin rings. This family includes protoporphyrin IX ferrochelatase (HemH), sirohydrochlorin ferrochelatase (SirB) and the...; Region: Chelatase_Class_II; cl02784 980514000748 hypothetical protein; Provisional; Region: PRK01254 980514000749 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 980514000750 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 980514000751 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 980514000752 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 980514000753 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_2; cd06150 980514000754 homotrimer interaction site [polypeptide binding]; other site 980514000755 putative active site [active] 980514000756 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 980514000757 active site 980514000758 DNA polymerase IV; Validated; Region: PRK02406 980514000759 DNA binding site [nucleotide binding] 980514000760 Uncharacterized bacterial muramidase containing a glycosyl hydrolase family 25 (GH25) catalytic domain. Endo-N-acetylmuramidases are lysozymes (also referred to as peptidoglycan hydrolases) that degrade bacterial cell walls by catalyzing the hydrolysis...; Region: GH25_muramidase_1; cd06413 980514000761 active site 980514000762 Glycosyl hydrolases family 25; Region: Glyco_hydro_25; pfam01183 980514000763 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 980514000764 putative transporter; Provisional; Region: PRK10504 980514000765 putative substrate translocation pore; other site 980514000766 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 980514000767 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 980514000768 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 980514000769 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 980514000770 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 980514000771 Transporter associated domain; Region: CorC_HlyC; smart01091 980514000772 hypothetical protein; Provisional; Region: PRK01752 980514000773 SEC-C motif; Region: SEC-C; pfam02810 980514000774 Predicted membrane protein [Function unknown]; Region: COG2860 980514000775 UPF0126 domain; Region: UPF0126; pfam03458 980514000776 UPF0126 domain; Region: UPF0126; pfam03458 980514000777 benzoate transport; Region: 2A0115; TIGR00895 980514000778 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 980514000779 putative substrate translocation pore; other site 980514000780 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 980514000781 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 980514000782 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 980514000783 CAP-like domain; other site 980514000784 active site 980514000785 primary dimer interface [polypeptide binding]; other site 980514000786 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 980514000787 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 980514000788 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 980514000789 acyl-activating enzyme (AAE) consensus motif; other site 980514000790 putative AMP binding site [chemical binding]; other site 980514000791 putative active site [active] 980514000792 putative CoA binding site [chemical binding]; other site 980514000793 Predicted membrane protein [Function unknown]; Region: COG3686 980514000794 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 980514000795 dimer interface [polypeptide binding]; other site 980514000796 substrate binding site [chemical binding]; other site 980514000797 metal binding sites [ion binding]; metal-binding site 980514000798 outer membrane porin, OprD family; Region: OprD; pfam03573 980514000799 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 980514000800 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 980514000801 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 980514000802 inhibitor site; inhibition site 980514000803 active site 980514000804 dimer interface [polypeptide binding]; other site 980514000805 catalytic residue [active] 980514000806 class II aldolase/adducin domain protein; Provisional; Region: PRK07090 980514000807 intersubunit interface [polypeptide binding]; other site 980514000808 active site 980514000809 Zn2+ binding site [ion binding]; other site 980514000810 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 980514000811 DNA-binding site [nucleotide binding]; DNA binding site 980514000812 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 980514000813 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 980514000814 pyridoxal 5'-phosphate binding site [chemical binding]; other site 980514000815 homodimer interface [polypeptide binding]; other site 980514000816 catalytic residue [active] 980514000817 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 980514000818 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 980514000819 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 980514000820 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 980514000821 Helix-turn-helix domain; Region: HTH_28; pfam13518 980514000822 Integrase core domain; Region: rve; pfam00665 980514000823 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 980514000824 Bacterial TniB protein; Region: TniB; pfam05621 980514000825 AAA domain; Region: AAA_22; pfam13401 980514000826 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 980514000827 Ligand Binding Site [chemical binding]; other site 980514000828 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 980514000829 Ligand Binding Site [chemical binding]; other site 980514000830 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 980514000831 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 980514000832 Sulfate transporter family; Region: Sulfate_transp; pfam00916 980514000833 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 980514000834 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 980514000835 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 980514000836 multiple promoter invertase; Provisional; Region: mpi; PRK13413 980514000837 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 980514000838 catalytic residues [active] 980514000839 catalytic nucleophile [active] 980514000840 Presynaptic Site I dimer interface [polypeptide binding]; other site 980514000841 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 980514000842 Synaptic Flat tetramer interface [polypeptide binding]; other site 980514000843 Synaptic Site I dimer interface [polypeptide binding]; other site 980514000844 DNA binding site [nucleotide binding] 980514000845 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 980514000846 DNA-binding interface [nucleotide binding]; DNA binding site 980514000847 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 980514000848 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 980514000849 Integrase core domain; Region: rve; pfam00665 980514000850 Serine Recombinase (SR) family, Resolvase and Invertase subfamily, catalytic domain; members contain a C-terminal DNA binding domain. Serine recombinases catalyze site-specific recombination of DNA molecules by a concerted, four-strand cleavage and...; Region: SR_ResInv; cd03768 980514000851 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 980514000852 Presynaptic Site I dimer interface [polypeptide binding]; other site 980514000853 catalytic residues [active] 980514000854 Synaptic Antiparallel dimer interface [polypeptide binding]; other site 980514000855 Synaptic Flat tetramer interface [polypeptide binding]; other site 980514000856 Synaptic Site I dimer interface [polypeptide binding]; other site 980514000857 DNA binding site [nucleotide binding] 980514000858 Helix-turn-helix domain of resolvase; Region: HTH_7; pfam02796 980514000859 beta-lactamase TEM; Provisional; Region: PRK15442 980514000860 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 980514000861 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 980514000862 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 980514000863 Integrase core domain; Region: rve; pfam00665 980514000864 Aminoglycoside 3'-phosphotransferase (APH). The APH subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin...; Region: APH; cd05150 980514000865 Phosphotransferase enzyme family; Region: APH; pfam01636 980514000866 active site 980514000867 ATP binding site [chemical binding]; other site 980514000868 antibiotic binding site [chemical binding]; other site 980514000869 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 980514000870 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 980514000871 Resolvase, N terminal domain; Region: Resolvase; pfam00239 980514000872 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 980514000873 DNA-binding interface [nucleotide binding]; DNA binding site 980514000874 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 980514000875 Domain of unknown function (DUF3330); Region: DUF3330; pfam11809 980514000876 integrase/recombinase; Provisional; Region: PRK15417 980514000877 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 980514000878 Int/Topo IB signature motif; other site 980514000879 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 980514000880 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 980514000881 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 980514000882 Coenzyme A binding pocket [chemical binding]; other site 980514000883 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 980514000884 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 980514000885 trimer interface [polypeptide binding]; other site 980514000886 active site 980514000887 substrate binding site [chemical binding]; other site 980514000888 CoA binding site [chemical binding]; other site 980514000889 aminoglycoside resistance protein; Provisional; Region: PRK13746 980514000890 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 980514000891 active site 980514000892 NTP binding site [chemical binding]; other site 980514000893 metal binding triad [ion binding]; metal-binding site 980514000894 antibiotic binding site [chemical binding]; other site 980514000895 Domain of unknown function (DUF4111); Region: DUF4111; pfam13427 980514000896 Small Multidrug Resistance protein; Region: Multi_Drug_Res; pfam00893 980514000897 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 980514000898 dihydropteroate synthase; Region: DHPS; TIGR01496 980514000899 substrate binding pocket [chemical binding]; other site 980514000900 dimer interface [polypeptide binding]; other site 980514000901 inhibitor binding site; inhibition site 980514000902 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 980514000903 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 980514000904 Coenzyme A binding pocket [chemical binding]; other site 980514000905 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 980514000906 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 980514000907 Integrase core domain; Region: rve; pfam00665 980514000908 Aminoglycoside 3'-phosphotransferase (APH). The APH subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin...; Region: APH; cd05150 980514000909 Phosphotransferase enzyme family; Region: APH; pfam01636 980514000910 active site 980514000911 ATP binding site [chemical binding]; other site 980514000912 antibiotic binding site [chemical binding]; other site 980514000913 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 980514000914 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 980514000915 Resolvase, N terminal domain; Region: Resolvase; pfam00239 980514000916 Helix-turn-helix domain of Hin and related proteins, a family of DNA-binding domains unique to bacteria and represented by the Hin protein of Salmonella. The basic HTH domain is a simple fold comprised of three core helices that form a right-handed...; Region: HTH_Hin_like; cd00569 980514000917 DNA-binding interface [nucleotide binding]; DNA binding site 980514000918 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 980514000919 Domain of unknown function (DUF3330); Region: DUF3330; pfam11809 980514000920 integrase/recombinase; Provisional; Region: PRK15417 980514000921 IntI (E2) integrases, site-specific tyrosine recombinases, DNA breaking-rejoining enzymes, N- and C-terminal domains. This CD includes integrases which are components of multiresistant integrons and mediate recombination between a proximal attI site and...; Region: INT_IntI; cd01193 980514000922 Int/Topo IB signature motif; other site 980514000923 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 980514000924 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 980514000925 Coenzyme A binding pocket [chemical binding]; other site 980514000926 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 980514000927 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 980514000928 Coenzyme A binding pocket [chemical binding]; other site 980514000929 Ribosomal protein L37e; Region: Ribosomal_L37e; cl00932 980514000930 aminoglycoside resistance protein; Provisional; Region: PRK13746 980514000931 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 980514000932 active site 980514000933 NTP binding site [chemical binding]; other site 980514000934 metal binding triad [ion binding]; metal-binding site 980514000935 antibiotic binding site [chemical binding]; other site 980514000936 Domain of unknown function (DUF4111); Region: DUF4111; pfam13427 980514000937 Small Multidrug Resistance protein; Region: Multi_Drug_Res; pfam00893 980514000938 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 980514000939 dihydropteroate synthase; Region: DHPS; TIGR01496 980514000940 substrate binding pocket [chemical binding]; other site 980514000941 dimer interface [polypeptide binding]; other site 980514000942 inhibitor binding site; inhibition site 980514000943 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 980514000944 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 980514000945 Coenzyme A binding pocket [chemical binding]; other site 980514000946 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 980514000947 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 980514000948 Integrase core domain; Region: rve; pfam00665 980514000949 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 980514000950 Ligand Binding Site [chemical binding]; other site 980514000951 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 980514000952 Ligand Binding Site [chemical binding]; other site 980514000953 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 980514000954 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 980514000955 Sulfate transporter family; Region: Sulfate_transp; pfam00916 980514000956 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 980514000957 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 980514000958 Major Facilitator Superfamily; Region: MFS_1; pfam07690 980514000959 putative substrate translocation pore; other site 980514000960 tetracycline repressor protein TetR; Provisional; Region: PRK13756 980514000961 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 980514000962 Tetracyclin repressor, C-terminal all-alpha domain; Region: TetR_C; pfam02909 980514000963 Protein of unknown function (DUF3363); Region: DUF3363; pfam11843 980514000964 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 980514000965 Putative transposase; Region: Y2_Tnp; pfam04986 980514000966 Aminoglycoside/hydroxyurea antibiotic resistance kinase; Region: APH_6_hur; pfam04655 980514000967 Aminoglycoside 3'-phosphotransferase (APH). The APH subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin...; Region: APH; cd05150 980514000968 Phosphotransferase enzyme family; Region: APH; pfam01636 980514000969 active site 980514000970 ATP binding site [chemical binding]; other site 980514000971 antibiotic binding site [chemical binding]; other site 980514000972 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 980514000973 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 980514000974 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 980514000975 Membrane fusogenic activity; Region: BMFP; pfam04380 980514000976 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 980514000977 Nitrogen regulatory protein P-II; Region: P-II; smart00938 980514000978 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 980514000979 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 980514000980 ATP cone domain; Region: ATP-cone; pfam03477 980514000981 bifunctional diaminohydroxyphosphoribosylaminopyrimidine deaminase/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional; Region: ribD; PRK10786 980514000982 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 980514000983 catalytic motif [active] 980514000984 Zn binding site [ion binding]; other site 980514000985 RibD C-terminal domain; Region: RibD_C; cl17279 980514000986 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 980514000987 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 980514000988 Lumazine binding domain; Region: Lum_binding; pfam00677 980514000989 Lumazine binding domain; Region: Lum_binding; pfam00677 980514000990 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 980514000991 multifunctional aminopeptidase A; Provisional; Region: PRK00913 980514000992 Cytosol aminopeptidase family, N-terminal and catalytic domains. Family M17 contains zinc- and manganese-dependent exopeptidases ( EC 3.4.11.1), including leucine aminopeptidase. They catalyze removal of amino acids from the N-terminus of a protein and...; Region: Peptidase_M17; cd00433 980514000993 interface (dimer of trimers) [polypeptide binding]; other site 980514000994 Substrate-binding/catalytic site; other site 980514000995 Zn-binding sites [ion binding]; other site 980514000996 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 980514000997 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 980514000998 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 980514000999 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 980514001000 phosphoglyceromutase; Provisional; Region: PRK05434 980514001001 Phosphoglyceromutase [Carbohydrate transport and metabolism]; Region: GpmI; COG0696 980514001002 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 980514001003 C-terminal peptidase (prc); Region: prc; TIGR00225 980514001004 PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated; Region: PDZ; cd00136 980514001005 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 980514001006 Catalytic dyad [active] 980514001007 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 980514001008 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 980514001009 active site 980514001010 phosphorylation site [posttranslational modification] 980514001011 intermolecular recognition site; other site 980514001012 dimerization interface [polypeptide binding]; other site 980514001013 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 980514001014 Walker A motif; other site 980514001015 ATP binding site [chemical binding]; other site 980514001016 Walker B motif; other site 980514001017 arginine finger; other site 980514001018 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 980514001019 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 980514001020 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 980514001021 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 980514001022 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 980514001023 dimer interface [polypeptide binding]; other site 980514001024 phosphorylation site [posttranslational modification] 980514001025 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 980514001026 ATP binding site [chemical binding]; other site 980514001027 Mg2+ binding site [ion binding]; other site 980514001028 G-X-G motif; other site 980514001029 response regulator; Provisional; Region: PRK09483 980514001030 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 980514001031 active site 980514001032 phosphorylation site [posttranslational modification] 980514001033 intermolecular recognition site; other site 980514001034 dimerization interface [polypeptide binding]; other site 980514001035 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 980514001036 DNA binding residues [nucleotide binding] 980514001037 dimerization interface [polypeptide binding]; other site 980514001038 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 980514001039 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 980514001040 threonine synthase; Reviewed; Region: PRK06721 980514001041 Threonine synthase is a pyridoxal phosphate (PLP) dependent enzyme that catalyses the last reaction in the synthesis of threonine from aspartate. It proceeds by converting O-phospho-L-homoserine (OPH) into threonine and inorganic phosphate. In plants; Region: Thr-synth_1; cd01563 980514001042 homodimer interface [polypeptide binding]; other site 980514001043 pyridoxal 5'-phosphate binding site [chemical binding]; other site 980514001044 catalytic residue [active] 980514001045 homoserine dehydrogenase; Provisional; Region: PRK06349 980514001046 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 980514001047 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 980514001048 ACT_HSDH_Hom CD includes the C-terminal ACT domain of the NAD(P)H-dependent, homoserine dehydrogenase (HSDH) and related domains; Region: ACT_HSDH-Hom; cd04881 980514001049 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 980514001050 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 980514001051 dimerization domain [polypeptide binding]; other site 980514001052 dimer interface [polypeptide binding]; other site 980514001053 catalytic residues [active] 980514001054 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 980514001055 XerD and XerC integrases, DNA breaking-rejoining enzymes, N- and C-terminal domains. XerD-like integrases are involved in the site-specific integration and excision of lysogenic bacteriophage genomes, transposition of conjugative transposons, termination...; Region: INT_XerDC; cd00798 980514001056 active site 980514001057 Int/Topo IB signature motif; other site 980514001058 FeoA domain; Region: FeoA; pfam04023 980514001059 Fe2+ transport system protein B [Inorganic ion transport and metabolism]; Region: FeoB; COG0370 980514001060 Ferrous iron transport protein B (FeoB) family; Region: FeoB; cd01879 980514001061 G1 box; other site 980514001062 GTP/Mg2+ binding site [chemical binding]; other site 980514001063 Switch I region; other site 980514001064 G2 box; other site 980514001065 G3 box; other site 980514001066 Switch II region; other site 980514001067 G4 box; other site 980514001068 G5 box; other site 980514001069 Nucleoside recognition; Region: Gate; pfam07670 980514001070 Ferrous iron transport protein B C terminus; Region: FeoB_C; pfam07664 980514001071 Nucleoside recognition; Region: Gate; pfam07670 980514001072 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK03803 980514001073 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 980514001074 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 980514001075 cell division protein FtsW; Region: ftsW; TIGR02614 980514001076 glutamyl-Q tRNA(Asp) synthetase; Reviewed; Region: PRK05710 980514001077 active site 980514001078 nucleotide binding site [chemical binding]; other site 980514001079 HIGH motif; other site 980514001080 KMSKS motif; other site 980514001081 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 980514001082 Enterobacter aerogenes GpdQ and related proteins, metallophosphatase domain; Region: MPP_GpdQ; cd07402 980514001083 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 980514001084 active site 980514001085 metal binding site [ion binding]; metal-binding site 980514001086 hexamer interface [polypeptide binding]; other site 980514001087 ADP-ribose pyrophosphatase NudF; Provisional; Region: nudF; PRK10729 980514001088 ADP-ribose pyrophosphatase (ADPRase) catalyzes the hydrolysis of ADP-ribose and a variety of additional ADP-sugar conjugates to AMP and ribose-5-phosphate. Like other members of the Nudix hydrolase superfamily, it requires a divalent cation, such as Mg2+; Region: ADPRase_NUDT5; cd03424 980514001089 dimer interface [polypeptide binding]; other site 980514001090 ADP-ribose binding site [chemical binding]; other site 980514001091 active site 980514001092 nudix motif; other site 980514001093 metal binding site [ion binding]; metal-binding site 980514001094 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 980514001095 ThiC-associated domain; Region: ThiC-associated; pfam13667 980514001096 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 980514001097 conjugal transfer protein TraV; Provisional; Region: PRK13733 980514001098 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 980514001099 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 980514001100 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 980514001101 EamA-like transporter family; Region: EamA; pfam00892 980514001102 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 980514001103 transcriptional regulator PhoU; Provisional; Region: PRK11115 980514001104 PhoU domain; Region: PhoU; pfam01895 980514001105 PhoU domain; Region: PhoU; pfam01895 980514001106 oxidative damage protection protein; Provisional; Region: PRK05408 980514001107 argininosuccinate lyase; Provisional; Region: PRK00855 980514001108 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 980514001109 active sites [active] 980514001110 tetramer interface [polypeptide binding]; other site 980514001111 Histidine kinase; Region: His_kinase; pfam06580 980514001112 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 980514001113 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 980514001114 active site 980514001115 phosphorylation site [posttranslational modification] 980514001116 intermolecular recognition site; other site 980514001117 dimerization interface [polypeptide binding]; other site 980514001118 LytTr DNA-binding domain; Region: LytTR; smart00850 980514001119 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 980514001120 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; cd00494 980514001121 domain interfaces; other site 980514001122 active site 980514001123 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 980514001124 Uroporphyrinogen-III synthase [Coenzyme metabolism]; Region: HemD; COG1587 980514001125 active site 980514001126 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 980514001127 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 980514001128 active site 980514001129 H-NS histone family; Region: Histone_HNS; pfam00816 980514001130 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 980514001131 Type II secretion system (T2SS), protein N; Region: T2SN; pfam01203 980514001132 type II secretion system protein C; Region: typeII_sec_gspC; TIGR01713 980514001133 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 980514001134 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 980514001135 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 980514001136 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 980514001137 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 980514001138 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 980514001139 Forkhead associated domain (FHA); found in eukaryotic and prokaryotic proteins. Putative nuclear signalling domain. FHA domains may bind phosphothreonine, phosphoserine and sometimes phosphotyrosine. In eukaryotes, many FHA domain-containing proteins...; Region: FHA; cd00060 980514001140 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 980514001141 phosphopeptide binding site; other site 980514001142 phosphoglycolate phosphatase; Provisional; Region: PRK13222 980514001143 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 980514001144 motif II; other site 980514001145 anthranilate synthase component I; Provisional; Region: PRK13565 980514001146 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 980514001147 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 980514001148 elongation factor Tu; Reviewed; Region: PRK00049 980514001149 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 980514001150 G1 box; other site 980514001151 GEF interaction site [polypeptide binding]; other site 980514001152 GTP/Mg2+ binding site [chemical binding]; other site 980514001153 Switch I region; other site 980514001154 G2 box; other site 980514001155 G3 box; other site 980514001156 Switch II region; other site 980514001157 G4 box; other site 980514001158 G5 box; other site 980514001159 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 980514001160 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 980514001161 Antibiotic Binding Site [chemical binding]; other site 980514001162 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 980514001163 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 980514001164 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 980514001165 putative homodimer interface [polypeptide binding]; other site 980514001166 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 980514001167 heterodimer interface [polypeptide binding]; other site 980514001168 homodimer interface [polypeptide binding]; other site 980514001169 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 980514001170 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 980514001171 23S rRNA interface [nucleotide binding]; other site 980514001172 L7/L12 interface [polypeptide binding]; other site 980514001173 putative thiostrepton binding site; other site 980514001174 L25 interface [polypeptide binding]; other site 980514001175 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 980514001176 mRNA/rRNA interface [nucleotide binding]; other site 980514001177 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 980514001178 23S rRNA interface [nucleotide binding]; other site 980514001179 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 980514001180 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 980514001181 core dimer interface [polypeptide binding]; other site 980514001182 peripheral dimer interface [polypeptide binding]; other site 980514001183 L10 interface [polypeptide binding]; other site 980514001184 L11 interface [polypeptide binding]; other site 980514001185 putative EF-Tu interaction site [polypeptide binding]; other site 980514001186 putative EF-G interaction site [polypeptide binding]; other site 980514001187 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 980514001188 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 980514001189 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 980514001190 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 980514001191 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 980514001192 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 980514001193 RPB1 interaction site [polypeptide binding]; other site 980514001194 RPB11 interaction site [polypeptide binding]; other site 980514001195 RPB10 interaction site [polypeptide binding]; other site 980514001196 RPB3 interaction site [polypeptide binding]; other site 980514001197 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 980514001198 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 980514001199 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 980514001200 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 980514001201 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 980514001202 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 980514001203 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 980514001204 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 980514001205 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 980514001206 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 980514001207 DNA binding site [nucleotide binding] 980514001208 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 980514001209 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 980514001210 active site 2 [active] 980514001211 active site 1 [active] 980514001212 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 980514001213 Putative serine esterase (DUF676); Region: DUF676; pfam05057 980514001214 Predicted permease [General function prediction only]; Region: COG2056 980514001215 Na+-H+ antiporter family; Region: Na_H_antiport_2; pfam13726 980514001216 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 980514001217 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 980514001218 heat shock protein 90; Provisional; Region: PRK05218 980514001219 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 980514001220 ATP binding site [chemical binding]; other site 980514001221 Mg2+ binding site [ion binding]; other site 980514001222 G-X-G motif; other site 980514001223 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 980514001224 DsbA family, FrnE subfamily; FrnE is a DsbA-like protein containing a CXXC motif. It is presumed to be a thiol oxidoreductase involved in polyketide biosynthesis, specifically in the production of the aromatic antibiotics frenolicin and nanaomycins; Region: DsbA_FrnE; cd03024 980514001225 catalytic residues [active] 980514001226 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 980514001227 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 980514001228 DNA binding residues [nucleotide binding] 980514001229 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 980514001230 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 980514001231 hypothetical protein; Provisional; Region: PRK10215 980514001232 3-ketoacyl-CoA thiolase; Reviewed; Region: fadA; PRK08947 980514001233 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 980514001234 dimer interface [polypeptide binding]; other site 980514001235 active site 980514001236 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadB; PRK11730 980514001237 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 980514001238 substrate binding site [chemical binding]; other site 980514001239 oxyanion hole (OAH) forming residues; other site 980514001240 trimer interface [polypeptide binding]; other site 980514001241 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 980514001242 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 980514001243 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 980514001244 Aspartyl/asparaginyl beta-hydroxylase and related dioxygenases [Posttranslational modification, protein turnover, chaperones]; Region: COG3555 980514001245 Cysteine hydrolases; This family contains amidohydrolases, like CSHase (N-carbamoylsarcosine amidohydrolase), involved in creatine metabolism and nicotinamidase, converting nicotinamide to nicotinic acid and ammonia in the pyridine nucleotide cycle. It...; Region: cysteine_hydrolases; cl00220 980514001246 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 980514001247 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 980514001248 GIY-YIG motif/motif A; other site 980514001249 active site 980514001250 catalytic site [active] 980514001251 putative DNA binding site [nucleotide binding]; other site 980514001252 metal binding site [ion binding]; metal-binding site 980514001253 UvrB/uvrC motif; Region: UVR; pfam02151 980514001254 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 980514001255 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 980514001256 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 980514001257 active site 980514001258 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II; cd00556 980514001259 active site 980514001260 dimer interface [polypeptide binding]; other site 980514001261 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 980514001262 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 980514001263 Helix-turn-helix domain; Region: HTH_18; pfam12833 980514001264 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 980514001265 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 980514001266 DNA binding site [nucleotide binding] 980514001267 active site 980514001268 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_2; pfam13532 980514001269 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 980514001270 Transcriptional regulator [Transcription]; Region: IclR; COG1414 980514001271 Bacterial transcriptional regulator; Region: IclR; pfam01614 980514001272 Fusaric acid resistance protein family; Region: FUSC; pfam04632 980514001273 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 980514001274 Protein of unknown function (DUF1656); Region: DUF1656; pfam07869 980514001275 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 980514001276 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 980514001277 HlyD family secretion protein; Region: HlyD_3; pfam13437 980514001278 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 980514001279 Uncharacterized ACR, COG1678; Region: DUF179; pfam02622 980514001280 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 980514001281 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 980514001282 Walker A/P-loop; other site 980514001283 ATP binding site [chemical binding]; other site 980514001284 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 980514001285 ABC transporter signature motif; other site 980514001286 Walker B; other site 980514001287 D-loop; other site 980514001288 H-loop/switch region; other site 980514001289 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 980514001290 binding surface 980514001291 Tetratricopeptide repeat; Region: TPR_16; pfam13432 980514001292 TPR motif; other site 980514001293 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 980514001294 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 980514001295 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; pfam08032 980514001296 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 980514001297 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 980514001298 EamA-like transporter family; Region: EamA; pfam00892 980514001299 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 980514001300 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 980514001301 CoA-binding site [chemical binding]; other site 980514001302 ATP-binding [chemical binding]; other site 980514001303 Type II secretory pathway, prepilin signal peptidase PulO and related peptidases [Cell motility and secretion / Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: PulO; COG1989 980514001304 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 980514001305 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 980514001306 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 980514001307 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 980514001308 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 980514001309 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 980514001310 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 980514001311 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 980514001312 Walker A motif; other site 980514001313 ATP binding site [chemical binding]; other site 980514001314 Walker B motif; other site 980514001315 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 980514001316 triosephosphate isomerase; Provisional; Region: PRK14567 980514001317 substrate binding site [chemical binding]; other site 980514001318 dimer interface [polypeptide binding]; other site 980514001319 catalytic triad [active] 980514001320 Preprotein translocase SecG subunit; Region: SecG; pfam03840 980514001321 Sm and related proteins; Region: Sm_like; cl00259 980514001322 ribosome maturation protein RimP; Reviewed; Region: PRK00092 980514001323 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 980514001324 putative oligomer interface [polypeptide binding]; other site 980514001325 putative RNA binding site [nucleotide binding]; other site 980514001326 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 980514001327 NusA N-terminal domain; Region: NusA_N; pfam08529 980514001328 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 980514001329 RNA binding site [nucleotide binding]; other site 980514001330 homodimer interface [polypeptide binding]; other site 980514001331 NusA-like KH domain; Region: KH_5; pfam13184 980514001332 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 980514001333 G-X-X-G motif; other site 980514001334 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 980514001335 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 980514001336 translation initiation factor IF-2; Region: IF-2; TIGR00487 980514001337 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 980514001338 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 980514001339 G1 box; other site 980514001340 putative GEF interaction site [polypeptide binding]; other site 980514001341 GTP/Mg2+ binding site [chemical binding]; other site 980514001342 Switch I region; other site 980514001343 G2 box; other site 980514001344 G3 box; other site 980514001345 Switch II region; other site 980514001346 G4 box; other site 980514001347 G5 box; other site 980514001348 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 980514001349 Translation-initiation factor 2; Region: IF-2; pfam11987 980514001350 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 980514001351 ribosome-binding factor A; Provisional; Region: PRK13816 980514001352 putative monovalent cation/H+ antiporter subunit G; Reviewed; Region: PRK12674 980514001353 Multiple resistance and pH regulation protein F (MrpF / PhaF); Region: MrpF_PhaF; cl09154 980514001354 putative monovalent cation/H+ antiporter subunit E; Reviewed; Region: PRK08965 980514001355 putative monovalent cation/H+ antiporter subunit D; Reviewed; Region: PRK12666 980514001356 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 980514001357 putative monovalent cation/H+ antiporter subunit C; Reviewed; Region: PRK09094 980514001358 putative monovalent cation/H+ antiporter subunit A; Reviewed; Region: PRK12648 980514001359 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 980514001360 Domain of unknown function (DUF4040); Region: DUF4040; pfam13244 980514001361 Multisubunit Na+/H+ antiporter, MnhB subunit [Inorganic ion transport and metabolism]; Region: MnhB; COG2111 980514001362 putative monovalent cation/H+ antiporter subunit B; Reviewed; Region: PRK12573 980514001363 AAA domain; Region: AAA_23; pfam13476 980514001364 Family description; Region: UvrD_C_2; pfam13538 980514001365 bifunctional phosphoribosyl-AMP cyclohydrolase/phosphoribosyl-ATP pyrophosphatase protein; Reviewed; Region: PRK02759 980514001366 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 980514001367 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in Escherichia coli phosphoribosyl-ATP pyrophosphohydrolase (HisIE or PRATP-PH) and its homologs; Region: NTP-PPase_HisIE_like; cd11534 980514001368 metal binding site [ion binding]; metal-binding site 980514001369 2-polyprenyl-6-methoxyphenol hydroxylase and related FAD-dependent oxidoreductases [Coenzyme metabolism / Energy production and conversion]; Region: UbiH; COG0654 980514001370 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 980514001371 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 980514001372 ABC1 family; Region: ABC1; cl17513 980514001373 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 980514001374 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3165 980514001375 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 980514001376 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 980514001377 S-adenosylmethionine binding site [chemical binding]; other site 980514001378 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 980514001379 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 980514001380 polyphosphate:AMP phosphotransferase; Region: poly_P_AMP_trns; TIGR03708 980514001381 Polyphosphate kinase 2 (PPK2); Region: PPK2; cl11971 980514001382 Uncharacterized protein/domain associated with GTPases [Function unknown]; Region: COG3597 980514001383 Exodeoxyribonuclease V, gamma subunit; Region: Exonuc_V_gamma; pfam04257 980514001384 exonuclease V subunit gamma; Provisional; Region: recC; PRK11069 980514001385 Part of AAA domain; Region: AAA_19; pfam13245 980514001386 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 980514001387 Family description; Region: UvrD_C_2; pfam13538 980514001388 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 980514001389 AAA domain; Region: AAA_30; pfam13604 980514001390 AAA domain; Region: AAA_22; pfam13401 980514001391 Family description; Region: UvrD_C_2; pfam13538 980514001392 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 980514001393 Beta-lactamase; Region: Beta-lactamase; pfam00144 980514001394 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 980514001395 16S/18S rRNA binding site [nucleotide binding]; other site 980514001396 S13e-L30e interaction site [polypeptide binding]; other site 980514001397 25S rRNA binding site [nucleotide binding]; other site 980514001398 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 980514001399 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 980514001400 RNase E interface [polypeptide binding]; other site 980514001401 trimer interface [polypeptide binding]; other site 980514001402 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 980514001403 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 980514001404 RNase E interface [polypeptide binding]; other site 980514001405 trimer interface [polypeptide binding]; other site 980514001406 active site 980514001407 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 980514001408 putative nucleic acid binding region [nucleotide binding]; other site 980514001409 G-X-X-G motif; other site 980514001410 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 980514001411 RNA binding site [nucleotide binding]; other site 980514001412 domain interface; other site 980514001413 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 980514001414 Thermotoga maritima CorA-like family; Region: TmCorA-like; cd12822 980514001415 oligomer interface [polypeptide binding]; other site 980514001416 metal binding site [ion binding]; metal-binding site 980514001417 metal binding site [ion binding]; metal-binding site 980514001418 putative Cl binding site [ion binding]; other site 980514001419 aspartate ring; other site 980514001420 basic sphincter; other site 980514001421 hydrophobic gate; other site 980514001422 periplasmic entrance; other site 980514001423 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 980514001424 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 980514001425 chaperone protein DnaJ; Region: DnaJ_bact; TIGR02349 980514001426 HSP70 interaction site [polypeptide binding]; other site 980514001427 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 980514001428 substrate binding site [polypeptide binding]; other site 980514001429 dimer interface [polypeptide binding]; other site 980514001430 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 980514001431 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 980514001432 Heat shock protein 33 (Hsp33): Cytosolic protein that acts as a molecular chaperone under oxidative conditions. In normal (reducing) cytosolic conditions, four conserved Cys residues are coordinated by a Zn ion. Under oxidative stress (such as heat...; Region: Hsp33; cd00498 980514001433 dimerization interface [polypeptide binding]; other site 980514001434 domain crossover interface; other site 980514001435 redox-dependent activation switch; other site 980514001436 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 980514001437 transporter, monovalent cation:proton antiporter-2 (CPA2) family; Region: 2a37; TIGR00932 980514001438 TrkA-N domain; Region: TrkA_N; pfam02254 980514001439 primosome assembly protein PriA; Validated; Region: PRK05580 980514001440 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 980514001441 ATP binding site [chemical binding]; other site 980514001442 putative Mg++ binding site [ion binding]; other site 980514001443 helicase superfamily c-terminal domain; Region: HELICc; smart00490 980514001444 ATP-binding site [chemical binding]; other site 980514001445 type II secretion system protein F; Region: GspF; TIGR02120 980514001446 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 980514001447 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 980514001448 type II secretion system protein G; Region: typeII_sec_gspG; TIGR01710 980514001449 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 980514001450 tRNA-binding-domain-containing CsaA-like proteins. CsaA is a molecular chaperone with export related activities. CsaA has a putative tRNA binding activity. The functional unit of CsaA is a homodimer and this domain acts as a dimerization domain; Region: tRNA_bind_CsaA; cd02798 980514001451 dimer interface [polypeptide binding]; other site 980514001452 putative tRNA-binding site [nucleotide binding]; other site 980514001453 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 980514001454 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 980514001455 putative active site [active] 980514001456 catalytic triad [active] 980514001457 putative dimer interface [polypeptide binding]; other site 980514001458 FOG: CBS domain [General function prediction only]; Region: COG0517 980514001459 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 980514001460 Transporter associated domain; Region: CorC_HlyC; smart01091 980514001461 SirA (also known as UvrY, and YhhP) belongs to a family of two-component response regulators that controls secondary metabolism and virulence. The other member of this two-component system is a sensor kinase called BarA which phosphorylates SirA. A...; Region: SirA; cd03423 980514001462 CPxP motif; other site 980514001463 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 980514001464 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 980514001465 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 980514001466 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 980514001467 Protein of unknown function (DUF1285); Region: DUF1285; pfam06938 980514001468 glutamate racemase; Provisional; Region: PRK00865 980514001469 aspartate racemase; Region: asp_race; TIGR00035 980514001470 Domain of unknown function (DUF4062); Region: DUF4062; pfam13271 980514001471 ferrochelatase; Reviewed; Region: hemH; PRK00035 980514001472 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 980514001473 C-terminal domain interface [polypeptide binding]; other site 980514001474 active site 980514001475 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 980514001476 active site 980514001477 N-terminal domain interface [polypeptide binding]; other site 980514001478 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 980514001479 Domain of unknown function (DUF329); Region: DUF329; pfam03884 980514001480 Putative methyltransferase; Region: Methyltransf_4; cl17290 980514001481 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 980514001482 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 980514001483 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; pfam04828 980514001484 chromosome condensation membrane protein; Provisional; Region: PRK14196 980514001485 HopJ type III effector protein; Region: HopJ; pfam08888 980514001486 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 980514001487 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 980514001488 ABC1 family; Region: ABC1; pfam03109 980514001489 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 980514001490 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 980514001491 Flavin binding site [chemical binding]; other site 980514001492 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 980514001493 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 980514001494 Flavin binding site [chemical binding]; other site 980514001495 multidrug efflux protein; Reviewed; Region: PRK01766 980514001496 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 980514001497 cation binding site [ion binding]; other site 980514001498 Protein of unknown function, DUF606; Region: DUF606; pfam04657 980514001499 HemN family oxidoreductase; Provisional; Region: PRK05660 980514001500 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 980514001501 FeS/SAM binding site; other site 980514001502 HemN C-terminal domain; Region: HemN_C; pfam06969 980514001503 short chain dehydrogenase; Provisional; Region: PRK12744 980514001504 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 980514001505 NADP binding site [chemical binding]; other site 980514001506 homodimer interface [polypeptide binding]; other site 980514001507 active site 980514001508 substrate binding site [chemical binding]; other site 980514001509 Transcriptional regulator [Transcription]; Region: LysR; COG0583 980514001510 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514001511 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 980514001512 putative effector binding pocket; other site 980514001513 putative dimerization interface [polypeptide binding]; other site 980514001514 Bacterial TniB protein; Region: TniB; pfam05621 980514001515 long-chain-acyl-CoA synthetase; Validated; Region: PRK08279 980514001516 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 980514001517 Fatty acid transport proteins (FATP) play dual roles as fatty acid transporters and its activation enzymes; Region: FATP_FACS; cd05940 980514001518 acyl-activating enzyme (AAE) consensus motif; other site 980514001519 putative AMP binding site [chemical binding]; other site 980514001520 putative active site [active] 980514001521 putative CoA binding site [chemical binding]; other site 980514001522 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 980514001523 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 980514001524 homodimer interface [polypeptide binding]; other site 980514001525 oligonucleotide binding site [chemical binding]; other site 980514001526 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 980514001527 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 980514001528 RNA binding surface [nucleotide binding]; other site 980514001529 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 980514001530 active site 980514001531 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 980514001532 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 980514001533 motif II; other site 980514001534 Predicted transcriptional regulator [Transcription]; Region: COG2378 980514001535 HTH domain; Region: HTH_11; pfam08279 980514001536 WYL domain; Region: WYL; pfam13280 980514001537 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 980514001538 GST_N family, Saccharomyces cerevisiae GTT1-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT1, and the Schizosaccharomyces pombe GST-III. GSTs are cytosolic dimeric proteins involved...; Region: GST_N_GTT1_like; cd03046 980514001539 putative C-terminal domain interface [polypeptide binding]; other site 980514001540 putative GSH binding site (G-site) [chemical binding]; other site 980514001541 putative dimer interface [polypeptide binding]; other site 980514001542 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 980514001543 dimer interface [polypeptide binding]; other site 980514001544 N-terminal domain interface [polypeptide binding]; other site 980514001545 putative substrate binding pocket (H-site) [chemical binding]; other site 980514001546 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 980514001547 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 980514001548 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514001549 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 980514001550 dimerization interface [polypeptide binding]; other site 980514001551 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 980514001552 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 980514001553 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 980514001554 Heme-dependent peroxidases similar to plant peroxidases; Region: plant_peroxidase_like; cl00196 980514001555 heme binding site [chemical binding]; other site 980514001556 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 980514001557 Signal transduction protein containing GAF and PtsI domains [Signal transduction mechanisms]; Region: PtsP; COG3605 980514001558 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 980514001559 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 980514001560 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 980514001561 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 980514001562 Diadenosine tetraphosphate (Ap4A) hydrolase is a member of the Nudix hydrolase superfamily. Members of this family are well represented in a variety of prokaryotic and eukaryotic organisms. Phylogenetic analysis reveals two distinct subgroups where plant...; Region: Ap4A_hydrolase_plant_like; cd03671 980514001563 putative active site [active] 980514001564 Ap4A binding site [chemical binding]; other site 980514001565 nudix motif; other site 980514001566 putative metal binding site [ion binding]; other site 980514001567 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 980514001568 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 980514001569 Transcriptional regulator [Transcription]; Region: LysR; COG0583 980514001570 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514001571 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 980514001572 dimerization interface [polypeptide binding]; other site 980514001573 Predicted membrane protein (DUF2061); Region: DUF2061; pfam09834 980514001574 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 980514001575 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 980514001576 substrate binding site [chemical binding]; other site 980514001577 ligand binding site [chemical binding]; other site 980514001578 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 980514001579 Aconatase-like swivel domain of 3-isopropylmalate dehydratase and related uncharacterized proteins. 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate...; Region: IPMI_Swivel; cd01577 980514001580 substrate binding site [chemical binding]; other site 980514001581 tartrate dehydrogenase; Region: TTC; TIGR02089 980514001582 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 980514001583 Protein of unknown function (DUF1311); Region: DUF1311; cl01530 980514001584 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 980514001585 rRNA binding site [nucleotide binding]; other site 980514001586 predicted 30S ribosome binding site; other site 980514001587 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 980514001588 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 980514001589 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 980514001590 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 980514001591 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 980514001592 dimerization interface 3.5A [polypeptide binding]; other site 980514001593 active site 980514001594 Type I (cytosolic) bacterial L-asparaginase; Region: L-asparaginase_I; cd08963 980514001595 active site 980514001596 homodimer interface [polypeptide binding]; other site 980514001597 FimV N-terminal domain; Region: FimV_core; TIGR03505 980514001598 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 980514001599 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 980514001600 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 980514001601 putative catalytic site [active] 980514001602 putative metal binding site [ion binding]; other site 980514001603 putative phosphate binding site [ion binding]; other site 980514001604 glutamate/aspartate:proton symporter; Provisional; Region: gltP; PRK11283 980514001605 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 980514001606 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 980514001607 This family is most closely related to the GT1 family of glycosyltransferases. WavL in Vibrio cholerae has been shown to be involved in the biosynthesis of the lipopolysaccharide core; Region: GT1_WavL_like; cd03819 980514001608 putative ADP-binding pocket [chemical binding]; other site 980514001609 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 980514001610 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 980514001611 putative acyl-acceptor binding pocket; other site 980514001612 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 980514001613 ABC transporter ATPase component; Reviewed; Region: PRK11147 980514001614 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 980514001615 Walker A/P-loop; other site 980514001616 ATP binding site [chemical binding]; other site 980514001617 Q-loop/lid; other site 980514001618 ABC transporter signature motif; other site 980514001619 Walker B; other site 980514001620 D-loop; other site 980514001621 H-loop/switch region; other site 980514001622 ABC transporter; Region: ABC_tran_2; pfam12848 980514001623 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 980514001624 SlyX; Region: SlyX; pfam04102 980514001625 Arginate lyase and other MDR family members; Region: AL_MDR; cd08252 980514001626 zinc-binding alcohol dehydrogenase family protein; Region: adh_fam_1; TIGR02817 980514001627 putative NAD(P) binding site [chemical binding]; other site 980514001628 dimer interface [polypeptide binding]; other site 980514001629 Predicted transcriptional regulators [Transcription]; Region: COG1733 980514001630 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 980514001631 DNA topoisomerase I subunit omega; Validated; Region: PRK07561 980514001632 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 980514001633 active site 980514001634 interdomain interaction site; other site 980514001635 putative metal-binding site [ion binding]; other site 980514001636 nucleotide binding site [chemical binding]; other site 980514001637 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 980514001638 domain I; other site 980514001639 DNA binding groove [nucleotide binding] 980514001640 phosphate binding site [ion binding]; other site 980514001641 domain II; other site 980514001642 domain III; other site 980514001643 nucleotide binding site [chemical binding]; other site 980514001644 catalytic site [active] 980514001645 domain IV; other site 980514001646 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 980514001647 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 980514001648 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 980514001649 Topoisomerase I zinc-ribbon-like; Region: Topo_Zn_Ribbon; pfam08272 980514001650 Uncharacterized conserved protein [Function unknown]; Region: HdeD; COG3247 980514001651 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 980514001652 Part of AAA domain; Region: AAA_19; pfam13245 980514001653 Family description; Region: UvrD_C_2; pfam13538 980514001654 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 980514001655 RNA recognition motif; Region: RRM; smart00360 980514001656 ASC-1 homology or ASCH domain, a small beta-barrel domain found in all three kingdoms of life. ASCH resembles the RNA-binding PUA domain and may also interact with RNA. ASCH has been proposed to function as an RNA-binding domain during coactivation; Region: ASCH; cl01020 980514001657 putative cation:proton antiport protein; Provisional; Region: PRK10669 980514001658 Kef-type K+ transport system, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: RosB; COG4651 980514001659 TrkA-N domain; Region: TrkA_N; pfam02254 980514001660 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 980514001661 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 980514001662 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 980514001663 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 980514001664 NAD(P) binding site [chemical binding]; other site 980514001665 catalytic residues [active] 980514001666 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 980514001667 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 980514001668 Bacterial transcriptional repressor; Region: TetR; pfam13972 980514001669 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 980514001670 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 980514001671 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 980514001672 putative active site [active] 980514001673 putative substrate binding site [chemical binding]; other site 980514001674 putative cosubstrate binding site; other site 980514001675 catalytic site [active] 980514001676 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 980514001677 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 980514001678 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 980514001679 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 980514001680 methionine sulfoxide reductase A; Provisional; Region: PRK14054 980514001681 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 980514001682 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 980514001683 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 980514001684 folate binding site [chemical binding]; other site 980514001685 NADP+ binding site [chemical binding]; other site 980514001686 thymidylate synthase; Reviewed; Region: thyA; PRK01827 980514001687 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 980514001688 dimerization interface [polypeptide binding]; other site 980514001689 active site 980514001690 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK12437 980514001691 NRDE protein; Region: NRDE; cl01315 980514001692 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 980514001693 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 980514001694 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 980514001695 twin arginine-targeting protein translocase TatB; Region: tatB; TIGR01410 980514001696 mttA/Hcf106 family; Region: MttA_Hcf106; cl00788 980514001697 Membrane transport protein; Region: Mem_trans; cl09117 980514001698 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 980514001699 active site 980514001700 dimerization interface [polypeptide binding]; other site 980514001701 Sel1-like repeats; Region: SEL1; smart00671 980514001702 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 980514001703 Sel1-like repeats; Region: SEL1; smart00671 980514001704 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 980514001705 S-adenosylmethionine binding site [chemical binding]; other site 980514001706 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 980514001707 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 980514001708 2-isopropylmalate synthase; Validated; Region: PRK03739 980514001709 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 980514001710 active site 980514001711 catalytic residues [active] 980514001712 metal binding site [ion binding]; metal-binding site 980514001713 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 980514001714 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 980514001715 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 980514001716 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 980514001717 N-terminal plug; other site 980514001718 ligand-binding site [chemical binding]; other site 980514001719 trigger factor; Provisional; Region: tig; PRK01490 980514001720 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 980514001721 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 980514001722 Clp protease; Region: CLP_protease; pfam00574 980514001723 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 980514001724 oligomer interface [polypeptide binding]; other site 980514001725 active site residues [active] 980514001726 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 980514001727 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 980514001728 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 980514001729 Walker A motif; other site 980514001730 ATP binding site [chemical binding]; other site 980514001731 Walker B motif; other site 980514001732 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 980514001733 Protein of unknown function (DUF2846); Region: DUF2846; pfam11008 980514001734 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 980514001735 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 980514001736 Fumarase C-terminus; Region: Fumerase_C; pfam05683 980514001737 phosphate acetyltransferase; Reviewed; Region: PRK05632 980514001738 DRTGG domain; Region: DRTGG; pfam07085 980514001739 phosphotransacetylase; Reviewed; Region: eutD; PRK09653 980514001740 acetate kinase A/propionate kinase 2; Reviewed; Region: PRK00180 980514001741 propionate/acetate kinase; Provisional; Region: PRK12379 980514001742 phosphogluconate dehydratase; Validated; Region: PRK09054 980514001743 6-phosphogluconate dehydratase; Region: edd; TIGR01196 980514001744 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 980514001745 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 980514001746 active site 980514001747 intersubunit interface [polypeptide binding]; other site 980514001748 catalytic residue [active] 980514001749 GntP family permease; Region: GntP_permease; pfam02447 980514001750 fructuronate transporter; Provisional; Region: PRK10034; cl15264 980514001751 Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate. The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits; Region: GntK; cd02021 980514001752 ATP-binding site [chemical binding]; other site 980514001753 Gluconate-6-phosphate binding site [chemical binding]; other site 980514001754 Shikimate kinase; Region: SKI; pfam01202 980514001755 NADP+-dependent non-phosphorylating glyceraldehyde 3-phosphate dehydrogenase and ALDH family 11; Region: ALDH_F11_NP-GAPDH; cd07082 980514001756 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 980514001757 tetrameric interface [polypeptide binding]; other site 980514001758 activator binding site; other site 980514001759 NADP binding site [chemical binding]; other site 980514001760 substrate binding site [chemical binding]; other site 980514001761 catalytic residues [active] 980514001762 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 980514001763 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 980514001764 putative catalytic cysteine [active] 980514001765 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 980514001766 Leucine carboxyl methyltransferase; Region: LCM; pfam04072 980514001767 beta-hexosaminidase; Provisional; Region: PRK05337 980514001768 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 980514001769 carboxy-terminal protease; Provisional; Region: PRK11186 980514001770 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 980514001771 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 980514001772 protein binding site [polypeptide binding]; other site 980514001773 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 980514001774 Catalytic dyad [active] 980514001775 C-terminal domain of tail specific protease (DUF3340); Region: DUF3340; pfam11818 980514001776 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 980514001777 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_2; cd03814 980514001778 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 980514001779 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 980514001780 active site 980514001781 Iron-sulphur cluster assembly; Region: Fe-S_assembly; pfam04384 980514001782 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 980514001783 active site 980514001784 multimer interface [polypeptide binding]; other site 980514001785 ribosomal RNA large subunit methyltransferase N; Provisional; Region: PRK11194 980514001786 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 980514001787 FeS/SAM binding site; other site 980514001788 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 980514001789 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 980514001790 TPR motif; other site 980514001791 binding surface 980514001792 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 980514001793 TPR motif; other site 980514001794 binding surface 980514001795 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 980514001796 binding surface 980514001797 TPR motif; other site 980514001798 Helix-turn-helix domain; Region: HTH_25; pfam13413 980514001799 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 980514001800 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 980514001801 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 980514001802 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 980514001803 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 980514001804 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 980514001805 dimer interface [polypeptide binding]; other site 980514001806 motif 1; other site 980514001807 active site 980514001808 motif 2; other site 980514001809 motif 3; other site 980514001810 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 980514001811 anticodon binding site; other site 980514001812 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 980514001813 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 980514001814 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 980514001815 TPR motif; other site 980514001816 binding surface 980514001817 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 980514001818 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 980514001819 Trp docking motif [polypeptide binding]; other site 980514001820 active site 980514001821 GTP-binding protein Der; Reviewed; Region: PRK00093 980514001822 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 980514001823 G1 box; other site 980514001824 GTP/Mg2+ binding site [chemical binding]; other site 980514001825 Switch I region; other site 980514001826 G2 box; other site 980514001827 Switch II region; other site 980514001828 G3 box; other site 980514001829 G4 box; other site 980514001830 G5 box; other site 980514001831 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 980514001832 G1 box; other site 980514001833 GTP/Mg2+ binding site [chemical binding]; other site 980514001834 Switch I region; other site 980514001835 G2 box; other site 980514001836 G3 box; other site 980514001837 Switch II region; other site 980514001838 G4 box; other site 980514001839 G5 box; other site 980514001840 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 980514001841 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 980514001842 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 980514001843 putative acyl-acceptor binding pocket; other site 980514001844 Phosphopantetheine attachment site; Region: PP-binding; cl09936 980514001845 acyl carrier protein; Provisional; Region: PRK05350 980514001846 Predicted membrane protein [Function unknown]; Region: COG4648 980514001847 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 980514001848 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 980514001849 acyl-activating enzyme (AAE) consensus motif; other site 980514001850 active site 980514001851 AMP binding site [chemical binding]; other site 980514001852 CoA binding site [chemical binding]; other site 980514001853 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 980514001854 active site 2 [active] 980514001855 active site 1 [active] 980514001856 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 980514001857 Ligand binding site; other site 980514001858 Putative Catalytic site; other site 980514001859 DXD motif; other site 980514001860 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 980514001861 putative acyl-acceptor binding pocket; other site 980514001862 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 980514001863 active sites [active] 980514001864 tetramer interface [polypeptide binding]; other site 980514001865 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 980514001866 active site 980514001867 Outer membrane lipoprotein carrier protein LolA; Region: LolA; cl17548 980514001868 Predicted exporter [General function prediction only]; Region: COG4258 980514001869 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 980514001870 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK09185 980514001871 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 980514001872 dimer interface [polypeptide binding]; other site 980514001873 active site 980514001874 Domain of unknown function, appears to be related to a diverse group of beta-hydroxydecanoyl ACP dehydratases (FabA) and beta-hydroxyacyl ACP dehydratases (FabZ). This group appears to lack the conserved active site histidine of FabA and FabZ; Region: FabA_like; cd01289 980514001875 putative active site 1 [active] 980514001876 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 980514001877 3-oxoacyl-(acyl-carrier-protein) reductase, putative; Region: fabG_rel; TIGR01831 980514001878 NAD(P) binding site [chemical binding]; other site 980514001879 homotetramer interface [polypeptide binding]; other site 980514001880 homodimer interface [polypeptide binding]; other site 980514001881 active site 980514001882 3-oxoacyl-(acyl carrier protein) synthase II; Reviewed; Region: PRK09116 980514001883 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 980514001884 dimer interface [polypeptide binding]; other site 980514001885 active site 980514001886 Phosphopantetheinyl transferase [Coenzyme metabolism]; Region: Sfp; COG2091 980514001887 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 980514001888 preprotein translocase subunit SecB; Validated; Region: PRK05751 980514001889 SecA binding site; other site 980514001890 Preprotein binding site; other site 980514001891 Glutaredoxin (GRX) family, GRX bacterial class 1 and 3 (b_1_3)-like subfamily; composed of bacterial GRXs, approximately 10 kDa in size, and proteins containing a GRX or GRX-like domain. GRX is a glutathione (GSH) dependent reductase, catalyzing the...; Region: GRX_GRXb_1_3_like; cd03418 980514001892 GSH binding site [chemical binding]; other site 980514001893 catalytic residues [active] 980514001894 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 980514001895 active site residue [active] 980514001896 GTPase RsgA; Reviewed; Region: PRK12288 980514001897 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 980514001898 RNA binding site [nucleotide binding]; other site 980514001899 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 980514001900 GTPase/Zn-binding domain interface [polypeptide binding]; other site 980514001901 GTP/Mg2+ binding site [chemical binding]; other site 980514001902 G4 box; other site 980514001903 G5 box; other site 980514001904 G1 box; other site 980514001905 Switch I region; other site 980514001906 G2 box; other site 980514001907 G3 box; other site 980514001908 Switch II region; other site 980514001909 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 980514001910 catalytic site [active] 980514001911 putative active site [active] 980514001912 putative substrate binding site [chemical binding]; other site 980514001913 dimer interface [polypeptide binding]; other site 980514001914 Bax inhibitor 1 like; Region: BaxI_1; cl17691 980514001915 Enoyl-[acyl-carrier-protein]; Region: FabI; COG0623 980514001916 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 980514001917 NAD binding site [chemical binding]; other site 980514001918 homotetramer interface [polypeptide binding]; other site 980514001919 homodimer interface [polypeptide binding]; other site 980514001920 substrate binding site [chemical binding]; other site 980514001921 active site 980514001922 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 980514001923 macrolide transporter ATP-binding /permease protein; Provisional; Region: PRK10535 980514001924 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 980514001925 Walker A/P-loop; other site 980514001926 ATP binding site [chemical binding]; other site 980514001927 Q-loop/lid; other site 980514001928 ABC transporter signature motif; other site 980514001929 Walker B; other site 980514001930 D-loop; other site 980514001931 H-loop/switch region; other site 980514001932 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 980514001933 FtsX-like permease family; Region: FtsX; pfam02687 980514001934 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 980514001935 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 980514001936 HlyD family secretion protein; Region: HlyD_3; pfam13437 980514001937 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 980514001938 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 980514001939 Lipopolysaccharide-assembly; Region: LptE; pfam04390 980514001940 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 980514001941 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 980514001942 HIGH motif; other site 980514001943 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 980514001944 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 980514001945 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 980514001946 active site 980514001947 KMSKS motif; other site 980514001948 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 980514001949 tRNA binding surface [nucleotide binding]; other site 980514001950 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 980514001951 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06466 980514001952 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 980514001953 PYR/PP interface [polypeptide binding]; other site 980514001954 dimer interface [polypeptide binding]; other site 980514001955 TPP binding site [chemical binding]; other site 980514001956 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 980514001957 Thiamine pyrophosphate (TPP) family, Acetohydroxyacid synthase (AHAS) subfamily, TPP-binding module; composed of proteins similar to the large catalytic subunit of AHAS. AHAS catalyzes the condensation of two molecules of pyruvate to give the...; Region: TPP_AHAS; cd02015 980514001958 TPP-binding site [chemical binding]; other site 980514001959 dimer interface [polypeptide binding]; other site 980514001960 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 980514001961 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 980514001962 putative valine binding site [chemical binding]; other site 980514001963 dimer interface [polypeptide binding]; other site 980514001964 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 980514001965 ketol-acid reductoisomerase; Provisional; Region: PRK05479 980514001966 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 980514001967 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 980514001968 MHYT domain (predicted integral membrane sensor domain) [Signal transduction mechanisms]; Region: COG3300 980514001969 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 980514001970 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 980514001971 metal binding site [ion binding]; metal-binding site 980514001972 active site 980514001973 I-site; other site 980514001974 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 980514001975 transcriptional repressor BetI; Region: betaine_BetI; TIGR03384 980514001976 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 980514001977 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 980514001978 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 980514001979 G1 box; other site 980514001980 putative GEF interaction site [polypeptide binding]; other site 980514001981 GTP/Mg2+ binding site [chemical binding]; other site 980514001982 Switch I region; other site 980514001983 G2 box; other site 980514001984 G3 box; other site 980514001985 Switch II region; other site 980514001986 G4 box; other site 980514001987 G5 box; other site 980514001988 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 980514001989 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 980514001990 Domain of unknown function (DUF4163); Region: DUF4163; pfam13739 980514001991 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 980514001992 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 980514001993 active site 980514001994 aconitate hydratase; Validated; Region: PRK09277 980514001995 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 980514001996 substrate binding site [chemical binding]; other site 980514001997 ligand binding site [chemical binding]; other site 980514001998 Aconitase A swivel domain. This is the major form of the TCA cycle enzyme aconitate hydratase, also known as aconitase and citrate hydro-lyase. It includes bacterial and archaeal aconitase A, and the eukaryotic cytosolic form of aconitase. This group...; Region: AcnA_IRP_Swivel; cd01580 980514001999 substrate binding site [chemical binding]; other site 980514002000 This group of proteins belong to a large family of YjgF/YER057c/UK114-like proteins present in bacteria, archaea, and eukaryotes with no definitive function. The conserved domain is similar in structure to chorismate mutase but there is no sequence...; Region: YjgF_YER057c_UK114_like_1; cd02199 980514002001 homotrimer interaction site [polypeptide binding]; other site 980514002002 putative active site [active] 980514002003 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 980514002004 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 980514002005 putative ATP binding site [chemical binding]; other site 980514002006 putative substrate interface [chemical binding]; other site 980514002007 Transcriptional regulator [Transcription]; Region: LysR; COG0583 980514002008 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514002009 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in the catabolism of aromatic compounds and that of other related regulators, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like; cd08414 980514002010 dimerization interface [polypeptide binding]; other site 980514002011 substrate binding pocket [chemical binding]; other site 980514002012 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 980514002013 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 980514002014 FMN binding site [chemical binding]; other site 980514002015 active site 980514002016 catalytic residues [active] 980514002017 substrate binding site [chemical binding]; other site 980514002018 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 980514002019 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 980514002020 putative substrate translocation pore; other site 980514002021 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 980514002022 homotrimer interaction site [polypeptide binding]; other site 980514002023 putative active site [active] 980514002024 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 980514002025 EamA-like transporter family; Region: EamA; pfam00892 980514002026 EamA-like transporter family; Region: EamA; pfam00892 980514002027 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 980514002028 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 980514002029 ligand binding site [chemical binding]; other site 980514002030 homodimer interface [polypeptide binding]; other site 980514002031 NAD(P) binding site [chemical binding]; other site 980514002032 trimer interface B [polypeptide binding]; other site 980514002033 trimer interface A [polypeptide binding]; other site 980514002034 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 980514002035 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 980514002036 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 980514002037 retinol dehydrogenase (retinol-DH), Light dependent Protochlorophyllide (Pchlide) OxidoReductase (LPOR) and related proteins, classical (c) SDRs; Region: retinol-DH_like_SDR_c_like; cd05327 980514002038 acetoacetyl-CoA reductase; Provisional; Region: PRK12935 980514002039 putative NAD(P) binding site [chemical binding]; other site 980514002040 active site 980514002041 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 980514002042 hydroxypyruvate isomerase; Region: OH-pyruv-isom; TIGR03234 980514002043 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 980514002044 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 980514002045 enoyl-CoA hydratase; Provisional; Region: PRK07509 980514002046 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 980514002047 substrate binding site [chemical binding]; other site 980514002048 oxyanion hole (OAH) forming residues; other site 980514002049 trimer interface [polypeptide binding]; other site 980514002050 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 980514002051 dimer interface [polypeptide binding]; other site 980514002052 phosphorylation site [posttranslational modification] 980514002053 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 980514002054 ATP binding site [chemical binding]; other site 980514002055 Mg2+ binding site [ion binding]; other site 980514002056 G-X-G motif; other site 980514002057 Response regulator receiver domain; Region: Response_reg; pfam00072 980514002058 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 980514002059 active site 980514002060 phosphorylation site [posttranslational modification] 980514002061 intermolecular recognition site; other site 980514002062 dimerization interface [polypeptide binding]; other site 980514002063 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cl00086 980514002064 cysteine synthase B; Region: cysM; TIGR01138 980514002065 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 980514002066 dimer interface [polypeptide binding]; other site 980514002067 pyridoxal 5'-phosphate binding site [chemical binding]; other site 980514002068 catalytic residue [active] 980514002069 Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases; Region: DNA_polB_like1_exo; cd05782 980514002070 active site 980514002071 catalytic site [active] 980514002072 substrate binding site [chemical binding]; other site 980514002073 Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; Region: DNA_pol_B_exo2; pfam10108 980514002074 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 980514002075 TRAM domain; Region: TRAM; pfam01938 980514002076 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 980514002077 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 980514002078 S-adenosylmethionine binding site [chemical binding]; other site 980514002079 HD domain; Region: HD_4; pfam13328 980514002080 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 980514002081 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 980514002082 synthetase active site [active] 980514002083 NTP binding site [chemical binding]; other site 980514002084 metal binding site [ion binding]; metal-binding site 980514002085 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 980514002086 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 980514002087 short chain dehydrogenase; Provisional; Region: PRK08267 980514002088 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 980514002089 NAD(P) binding site [chemical binding]; other site 980514002090 active site 980514002091 nucleoside triphosphate pyrophosphohydrolase; Reviewed; Region: mazG; PRK09562 980514002092 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 980514002093 homodimer interface [polypeptide binding]; other site 980514002094 metal binding site [ion binding]; metal-binding site 980514002095 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 980514002096 homodimer interface [polypeptide binding]; other site 980514002097 active site 980514002098 putative chemical substrate binding site [chemical binding]; other site 980514002099 metal binding site [ion binding]; metal-binding site 980514002100 DNA uptake protein and related DNA-binding proteins [DNA replication, recombination, and repair]; Region: ComEA; COG1555 980514002101 Helix-hairpin-helix motif; Region: HHH; pfam00633 980514002102 poly(A) polymerase; Region: pcnB; TIGR01942 980514002103 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 980514002104 active site 980514002105 NTP binding site [chemical binding]; other site 980514002106 metal binding triad [ion binding]; metal-binding site 980514002107 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 980514002108 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 980514002109 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 980514002110 catalytic center binding site [active] 980514002111 ATP binding site [chemical binding]; other site 980514002112 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 980514002113 oligomerization interface [polypeptide binding]; other site 980514002114 active site 980514002115 metal binding site [ion binding]; metal-binding site 980514002116 pantoate--beta-alanine ligase; Region: panC; TIGR00018 980514002117 Pantoate-beta-alanine ligase; Region: PanC; cd00560 980514002118 active site 980514002119 ATP-binding site [chemical binding]; other site 980514002120 pantoate-binding site; other site 980514002121 HXXH motif; other site 980514002122 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 980514002123 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 980514002124 dimerization domain swap beta strand [polypeptide binding]; other site 980514002125 regulatory protein interface [polypeptide binding]; other site 980514002126 active site 980514002127 regulatory phosphorylation site [posttranslational modification]; other site 980514002128 hypothetical protein; Provisional; Region: PRK05255 980514002129 acyl-CoA synthetase; Validated; Region: PRK08162 980514002130 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 980514002131 acyl-activating enzyme (AAE) consensus motif; other site 980514002132 putative active site [active] 980514002133 AMP binding site [chemical binding]; other site 980514002134 putative CoA binding site [chemical binding]; other site 980514002135 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 980514002136 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 980514002137 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 980514002138 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 980514002139 active site 980514002140 dimer interface [polypeptide binding]; other site 980514002141 motif 1; other site 980514002142 motif 2; other site 980514002143 motif 3; other site 980514002144 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 980514002145 anticodon binding site; other site 980514002146 translation initiation factor IF-3; Reviewed; Region: infC; PRK00028 980514002147 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 980514002148 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 980514002149 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 980514002150 C-terminal domain interface [polypeptide binding]; other site 980514002151 GSH binding site (G-site) [chemical binding]; other site 980514002152 dimer interface [polypeptide binding]; other site 980514002153 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 980514002154 N-terminal domain interface [polypeptide binding]; other site 980514002155 putative dimer interface [polypeptide binding]; other site 980514002156 active site 980514002157 Predicted membrane protein [Function unknown]; Region: COG1238 980514002158 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 980514002159 putative substrate translocation pore; other site 980514002160 H+ Antiporter protein; Region: 2A0121; TIGR00900 980514002161 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 980514002162 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 980514002163 23S rRNA binding site [nucleotide binding]; other site 980514002164 L21 binding site [polypeptide binding]; other site 980514002165 L13 binding site [polypeptide binding]; other site 980514002166 Domain of unknown function (DUF1768); Region: DUF1768; pfam08719 980514002167 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 980514002168 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 980514002169 Coenzyme A binding pocket [chemical binding]; other site 980514002170 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 980514002171 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 980514002172 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 980514002173 dimer interface [polypeptide binding]; other site 980514002174 motif 1; other site 980514002175 active site 980514002176 motif 2; other site 980514002177 motif 3; other site 980514002178 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 980514002179 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 980514002180 putative tRNA-binding site [nucleotide binding]; other site 980514002181 B3/4 domain; Region: B3_4; pfam03483 980514002182 tRNA synthetase B5 domain; Region: B5; smart00874 980514002183 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 980514002184 dimer interface [polypeptide binding]; other site 980514002185 motif 1; other site 980514002186 motif 3; other site 980514002187 motif 2; other site 980514002188 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; pfam03147 980514002189 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 980514002190 IHF dimer interface [polypeptide binding]; other site 980514002191 IHF - DNA interface [nucleotide binding]; other site 980514002192 transcription termination factor Rho; Provisional; Region: rho; PRK09376 980514002193 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 980514002194 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 980514002195 RNA binding site [nucleotide binding]; other site 980514002196 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 980514002197 multimer interface [polypeptide binding]; other site 980514002198 Walker A motif; other site 980514002199 ATP binding site [chemical binding]; other site 980514002200 Walker B motif; other site 980514002201 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 980514002202 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 980514002203 catalytic residues [active] 980514002204 guanosine pentaphosphate phosphohydrolase; Provisional; Region: PRK11031 980514002205 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 980514002206 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 980514002207 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 980514002208 TilS substrate binding domain; Region: TilS; pfam09179 980514002209 TilS substrate C-terminal domain; Region: TilS_C; pfam11734 980514002210 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 980514002211 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 980514002212 YGGT family; Region: YGGT; pfam02325 980514002213 DNA polymerase I; Provisional; Region: PRK05755 980514002214 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 980514002215 active site 980514002216 metal binding site 1 [ion binding]; metal-binding site 980514002217 putative 5' ssDNA interaction site; other site 980514002218 metal binding site 3; metal-binding site 980514002219 metal binding site 2 [ion binding]; metal-binding site 980514002220 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 980514002221 putative DNA binding site [nucleotide binding]; other site 980514002222 putative metal binding site [ion binding]; other site 980514002223 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 980514002224 active site 980514002225 catalytic site [active] 980514002226 substrate binding site [chemical binding]; other site 980514002227 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 980514002228 active site 980514002229 DNA binding site [nucleotide binding] 980514002230 catalytic site [active] 980514002231 Predicted membrane protein (DUF2339); Region: DUF2339; pfam10101 980514002232 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 980514002233 Mechanosensitive ion channel; Region: MS_channel; pfam00924 980514002234 Protein of unknown function (DUF432); Region: DUF432; cl01027 980514002235 type II secretion system protein E; Region: type_II_gspE; TIGR02533 980514002236 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 980514002237 Walker A motif; other site 980514002238 ATP binding site [chemical binding]; other site 980514002239 Walker B motif; other site 980514002240 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 980514002241 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 980514002242 MarR family; Region: MarR; pfam01047 980514002243 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 980514002244 nitrilase; Region: PLN02798 980514002245 putative active site [active] 980514002246 catalytic triad [active] 980514002247 dimer interface [polypeptide binding]; other site 980514002248 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 980514002249 anti sigma factor interaction site; other site 980514002250 regulatory phosphorylation site [posttranslational modification]; other site 980514002251 Sigma factor PP2C-like phosphatases; Region: PP2C_SIG; smart00331 980514002252 VacJ like lipoprotein; Region: VacJ; cl01073 980514002253 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 980514002254 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 980514002255 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 980514002256 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 980514002257 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 980514002258 30S subunit binding site; other site 980514002259 BolA-like protein; Region: BolA; cl00386 980514002260 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 980514002261 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 980514002262 hinge; other site 980514002263 active site 980514002264 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 980514002265 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 980514002266 Histidinol dehydrogenase, HisD, E.C 1.1.1.23. Histidinol dehydrogenase catalyzes the last two steps in the L-histidine biosynthesis pathway, which is conserved in bacteria, archaea, fungi, and plants. These last two steps are (i) the NAD-dependent...; Region: Histidinol_dh; cd06572 980514002267 histidinol dehydrogenase; Region: hisD; TIGR00069 980514002268 NAD binding site [chemical binding]; other site 980514002269 dimerization interface [polypeptide binding]; other site 980514002270 product binding site; other site 980514002271 substrate binding site [chemical binding]; other site 980514002272 zinc binding site [ion binding]; other site 980514002273 catalytic residues [active] 980514002274 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 980514002275 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 980514002276 pyridoxal 5'-phosphate binding site [chemical binding]; other site 980514002277 homodimer interface [polypeptide binding]; other site 980514002278 catalytic residue [active] 980514002279 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 980514002280 Anthranilate/para-aminobenzoate synthases component I [Amino acid transport and metabolism / Coenzyme metabolism]; Region: TrpE; COG0147 980514002281 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 980514002282 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 980514002283 putative active site [active] 980514002284 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 980514002285 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 980514002286 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_4; cd04511 980514002287 nudix motif; other site 980514002288 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 980514002289 putative active site [active] 980514002290 putative CoA binding site [chemical binding]; other site 980514002291 nudix motif; other site 980514002292 metal binding site [ion binding]; metal-binding site 980514002293 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 980514002294 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 980514002295 trimer interface [polypeptide binding]; other site 980514002296 putative metal binding site [ion binding]; other site 980514002297 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 980514002298 Glycoprotease family; Region: Peptidase_M22; pfam00814 980514002299 Putative SAM-dependent methyltransferase; Region: SAM_MT; cl17517 980514002300 Peptidase C13 family; Region: Peptidase_C13; pfam01650 980514002301 S-formylglutathione hydrolase; Region: fghA_ester_D; TIGR02821 980514002302 S-formylglutathione hydrolase; Region: PLN02442 980514002303 Uncharacterized protein conserved in bacteria (DUF2218); Region: DUF2218; pfam09981 980514002304 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 980514002305 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 980514002306 substrate binding site [chemical binding]; other site 980514002307 hexamer interface [polypeptide binding]; other site 980514002308 metal binding site [ion binding]; metal-binding site 980514002309 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 980514002310 haloacid dehalogenase-like hydrolase; Region: Hydrolase_3; pfam08282 980514002311 active site 980514002312 motif I; other site 980514002313 motif II; other site 980514002314 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 980514002315 copper-resistance protein, CopA family; Region: copper_res_A; TIGR01480 980514002316 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 980514002317 Multicopper oxidase; Region: Cu-oxidase; pfam00394 980514002318 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 980514002319 Copper resistance protein B precursor (CopB); Region: CopB; pfam05275 980514002320 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 980514002321 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 980514002322 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 980514002323 methylated-DNA--protein-cysteine methyltransferase; Provisional; Region: PRK00901 980514002324 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 980514002325 DNA binding site [nucleotide binding] 980514002326 active site 980514002327 Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in...; Region: OAT; cd02152 980514002328 heterotetramer interface [polypeptide binding]; other site 980514002329 active site pocket [active] 980514002330 cleavage site 980514002331 quinolinate synthetase; Provisional; Region: PRK09375 980514002332 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 980514002333 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 980514002334 active site 980514002335 purine riboside binding site [chemical binding]; other site 980514002336 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 980514002337 Alcohol dehydrogenases of the MDR family; Region: Zn_ADH8; cd08262 980514002338 putative NAD(P) binding site [chemical binding]; other site 980514002339 catalytic Zn binding site [ion binding]; other site 980514002340 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 980514002341 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514002342 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 980514002343 dimerization interface [polypeptide binding]; other site 980514002344 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 980514002345 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 980514002346 FAD binding site [chemical binding]; other site 980514002347 substrate binding pocket [chemical binding]; other site 980514002348 catalytic base [active] 980514002349 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 980514002350 benzoate transport; Region: 2A0115; TIGR00895 980514002351 putative substrate translocation pore; other site 980514002352 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 980514002353 nitrobindin heme-binding domain; Region: nitrobindin; cl10502 980514002354 CoA-transferase family III; Region: CoA_transf_3; pfam02515 980514002355 tricarballylate utilization protein B; Provisional; Region: PRK15033 980514002356 tricarballylate dehydrogenase; Validated; Region: PRK08274 980514002357 Anaerobic glycerol-3-phosphate dehydrogenase [Amino acid transport and metabolism]; Region: GlpB; cl17730 980514002358 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 980514002359 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514002360 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 980514002361 putative dimerization interface [polypeptide binding]; other site 980514002362 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 980514002363 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 980514002364 citrate-proton symporter; Provisional; Region: PRK15075 980514002365 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 980514002366 putative substrate translocation pore; other site 980514002367 Transcriptional regulator [Transcription]; Region: LysR; COG0583 980514002368 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514002369 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 980514002370 putative dimerization interface [polypeptide binding]; other site 980514002371 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 980514002372 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 980514002373 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like6; cd05664 980514002374 metal binding site [ion binding]; metal-binding site 980514002375 putative dimer interface [polypeptide binding]; other site 980514002376 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 980514002377 SurA N-terminal domain; Region: SurA_N; pfam09312 980514002378 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 980514002379 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 980514002380 Fatty acid desaturase; Region: FA_desaturase; pfam00487 980514002381 LysE type translocator; Region: LysE; cl00565 980514002382 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514002383 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 980514002384 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 980514002385 dimerization interface [polypeptide binding]; other site 980514002386 Domain of unknown function (DUF1852); Region: DUF1852; pfam08908 980514002387 methionine synthase; Provisional; Region: PRK01207 980514002388 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 980514002389 substrate binding site [chemical binding]; other site 980514002390 THF binding site; other site 980514002391 zinc-binding site [ion binding]; other site 980514002392 Flavin Reductases; Region: FlaRed; cl00801 980514002393 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 980514002394 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 980514002395 Restriction endonuclease; Region: Mrr_cat; pfam04471 980514002396 AAA ATPase domain; Region: AAA_16; pfam13191 980514002397 AAA domain; Region: AAA_22; pfam13401 980514002398 Transcriptional regulator [Transcription]; Region: LysR; COG0583 980514002399 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514002400 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 980514002401 dimerization interface [polypeptide binding]; other site 980514002402 hypothetical protein; Provisional; Region: PRK10281 980514002403 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 980514002404 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 980514002405 Trp docking motif [polypeptide binding]; other site 980514002406 putative active site [active] 980514002407 TniQ; Region: TniQ; pfam06527 980514002408 Helix-turn-helix domain; Region: HTH_17; pfam12728 980514002409 Bacterial TniB protein; Region: TniB; pfam05621 980514002410 AAA domain; Region: AAA_22; pfam13401 980514002411 Integrase core domain; Region: rve; pfam00665 980514002412 TnsA endonuclease N terminal; Region: Tn7_Tnp_TnsA_N; pfam08722 980514002413 phage-associated protein, BcepMu gp16 family; Region: BcepMu_gp16; TIGR04111 980514002414 Protein of unknown function (DUF4007); Region: DUF4007; pfam13182 980514002415 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 980514002416 Active Sites [active] 980514002417 Histidine kinase-like ATPases; This family includes several ATP-binding proteins for example: histidine kinase, DNA gyrase B, topoisomerases, heat shock protein HSP90, phytochrome-like ATPases and DNA mismatch repair proteins; Region: HATPase_c; cl00075 980514002418 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c_3; pfam13589 980514002419 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 980514002420 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 980514002421 ATP binding site [chemical binding]; other site 980514002422 Mg2+ binding site [ion binding]; other site 980514002423 G-X-G motif; other site 980514002424 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 980514002425 dimer interface [polypeptide binding]; other site 980514002426 putative radical transfer pathway; other site 980514002427 diiron center [ion binding]; other site 980514002428 tyrosyl radical; other site 980514002429 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 980514002430 ATP cone domain; Region: ATP-cone; pfam03477 980514002431 Class I ribonucleotide reductase; Region: RNR_I; cd01679 980514002432 active site 980514002433 dimer interface [polypeptide binding]; other site 980514002434 catalytic residues [active] 980514002435 effector binding site; other site 980514002436 R2 peptide binding site; other site 980514002437 DNA-binding transcriptional regulator RstA; Provisional; Region: PRK10701 980514002438 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 980514002439 active site 980514002440 phosphorylation site [posttranslational modification] 980514002441 intermolecular recognition site; other site 980514002442 dimerization interface [polypeptide binding]; other site 980514002443 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 980514002444 DNA binding site [nucleotide binding] 980514002445 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 980514002446 dimerization interface [polypeptide binding]; other site 980514002447 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 980514002448 dimer interface [polypeptide binding]; other site 980514002449 phosphorylation site [posttranslational modification] 980514002450 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 980514002451 ATP binding site [chemical binding]; other site 980514002452 Mg2+ binding site [ion binding]; other site 980514002453 G-X-G motif; other site 980514002454 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 980514002455 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 980514002456 metal binding site [ion binding]; metal-binding site 980514002457 active site 980514002458 I-site; other site 980514002459 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 980514002460 NADH dehydrogenase subunit B; Validated; Region: PRK06411 980514002461 bifunctional NADH:ubiquinone oxidoreductase subunit C/D; Provisional; Region: PRK11742 980514002462 NADH (or F420H2) dehydrogenase, subunit C; Region: NuoC_fam; TIGR01961 980514002463 NADH dehydrogenase subunit D; Validated; Region: PRK06075 980514002464 NADH dehydrogenase subunit E; Validated; Region: PRK07539 980514002465 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 980514002466 putative dimer interface [polypeptide binding]; other site 980514002467 [2Fe-2S] cluster binding site [ion binding]; other site 980514002468 NADH dehydrogenase I subunit F; Provisional; Region: PRK11278 980514002469 SLBB domain; Region: SLBB; pfam10531 980514002470 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 980514002471 NADH dehydrogenase subunit G; Validated; Region: PRK08166 980514002472 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 980514002473 catalytic loop [active] 980514002474 iron binding site [ion binding]; other site 980514002475 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 980514002476 MopB_NDH-1_NuoG2-N7: The second domain of the NuoG subunit (with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex in the respiratory...; Region: MopB_NDH-1_NuoG2-N7; cd02771 980514002477 [4Fe-4S] binding site [ion binding]; other site 980514002478 MopB_CT_NDH-1_NuoG2-N7: C-terminal region of the NuoG-like subunit (of the variant with a [4Fe-4S] cluster, N7) of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1) found in various bacteria. The NDH-1 is the first energy-transducting complex...; Region: MopB_CT_NDH-1_NuoG2-N7; cd02788 980514002479 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 980514002480 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 980514002481 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 980514002482 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 980514002483 NADH:ubiquinone oxidoreductase subunit 6 (chain J) [Energy production and conversion]; Region: NuoJ; COG0839 980514002484 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 980514002485 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 980514002486 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 980514002487 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 980514002488 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 980514002489 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 980514002490 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 980514002491 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 980514002492 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 980514002493 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 980514002494 active site 980514002495 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 980514002496 DNA-binding site [nucleotide binding]; DNA binding site 980514002497 RNA-binding motif; other site 980514002498 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 980514002499 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514002500 C-terminal substrate binding domain of LysR-type transcriptional regulator CysL, which activates the transcription of the cysJI operon encoding sulfite reductase, contains the type 2 periplasmic binding fold; Region: PBP2_CysL_like; cd08420 980514002501 putative dimerization interface [polypeptide binding]; other site 980514002502 ferredoxin-NADP reductase; Provisional; Region: PRK10926 980514002503 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 980514002504 FAD binding pocket [chemical binding]; other site 980514002505 FAD binding motif [chemical binding]; other site 980514002506 phosphate binding motif [ion binding]; other site 980514002507 beta-alpha-beta structure motif; other site 980514002508 NAD binding pocket [chemical binding]; other site 980514002509 Conserved TM helix; Region: TM_helix; pfam05552 980514002510 Conserved TM helix; Region: TM_helix; pfam05552 980514002511 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 980514002512 Conserved TM helix; Region: TM_helix; pfam05552 980514002513 Conserved TM helix; Region: TM_helix; pfam05552 980514002514 HI0933-like protein; Region: HI0933_like; pfam03486 980514002515 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 980514002516 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 980514002517 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 980514002518 catalytic residue [active] 980514002519 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 980514002520 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 980514002521 HlyD family secretion protein; Region: HlyD_3; pfam13437 980514002522 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 980514002523 Major Facilitator Superfamily; Region: MFS_1; pfam07690 980514002524 putative substrate translocation pore; other site 980514002525 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 980514002526 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 980514002527 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 980514002528 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 980514002529 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 980514002530 active site 980514002531 HIGH motif; other site 980514002532 KMSKS motif; other site 980514002533 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 980514002534 tRNA binding surface [nucleotide binding]; other site 980514002535 anticodon binding site; other site 980514002536 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 980514002537 dimer interface [polypeptide binding]; other site 980514002538 putative tRNA-binding site [nucleotide binding]; other site 980514002539 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 980514002540 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 980514002541 Phosphorylase superfamily; Region: PNP_UDP_1; pfam01048 980514002542 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 980514002543 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 980514002544 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 980514002545 trimer interface [polypeptide binding]; other site 980514002546 active site 980514002547 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 980514002548 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 980514002549 FMN binding site [chemical binding]; other site 980514002550 active site 980514002551 catalytic residues [active] 980514002552 substrate binding site [chemical binding]; other site 980514002553 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 980514002554 signal recognition particle protein; Provisional; Region: PRK10867 980514002555 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 980514002556 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 980514002557 GTP binding site [chemical binding]; other site 980514002558 Signal peptide binding domain; Region: SRP_SPB; pfam02978 980514002559 pantothenate kinase; Reviewed; Region: PRK13322 980514002560 Biotin-(acetyl-CoA carboxylase) ligase [Coenzyme metabolism]; Region: BirA; COG0340 980514002561 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; cl14057 980514002562 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 980514002563 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 980514002564 Transcriptional regulators [Transcription]; Region: GntR; COG1802 980514002565 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 980514002566 DNA-binding site [nucleotide binding]; DNA binding site 980514002567 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 980514002568 AAA domain; Region: AAA_23; pfam13476 980514002569 Walker A/P-loop; other site 980514002570 ATP binding site [chemical binding]; other site 980514002571 Q-loop/lid; other site 980514002572 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 980514002573 ABC transporter signature motif; other site 980514002574 Walker B; other site 980514002575 D-loop; other site 980514002576 H-loop/switch region; other site 980514002577 ZipA, C-terminal FtsZ-binding domain; Region: ZipA_C; pfam04354 980514002578 FtsZ protein binding site [polypeptide binding]; other site 980514002579 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 980514002580 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 980514002581 nucleotide binding pocket [chemical binding]; other site 980514002582 K-X-D-G motif; other site 980514002583 catalytic site [active] 980514002584 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 980514002585 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 980514002586 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 980514002587 Dimer interface [polypeptide binding]; other site 980514002588 BRCT sequence motif; other site 980514002589 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 980514002590 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 980514002591 heme binding site [chemical binding]; other site 980514002592 ferroxidase pore; other site 980514002593 ferroxidase diiron center [ion binding]; other site 980514002594 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 980514002595 Major Facilitator Superfamily; Region: MFS_1; pfam07690 980514002596 putative substrate translocation pore; other site 980514002597 Trehalose-6-Phosphate Synthase (TPS) is a glycosyltransferase that catalyses the synthesis of alpha,alpha-1,1-trehalose-6-phosphate from glucose-6-phosphate using a UDP-glucose donor. It is a key enzyme in the trehalose synthesis pathway. Trehalose is a...; Region: GT1_TPS; cd03788 980514002598 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 980514002599 active site 980514002600 homotetramer interface [polypeptide binding]; other site 980514002601 Trehalose-6-phosphatase [Carbohydrate transport and metabolism]; Region: OtsB; COG1877 980514002602 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 980514002603 active site 980514002604 motif I; other site 980514002605 motif II; other site 980514002606 carboxylesterase BioH; Provisional; Region: PRK10349 980514002607 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 980514002608 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06173 980514002609 inhibitor-cofactor binding pocket; inhibition site 980514002610 pyridoxal 5'-phosphate binding site [chemical binding]; other site 980514002611 catalytic residue [active] 980514002612 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 980514002613 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 980514002614 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 980514002615 catalytic residue [active] 980514002616 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 980514002617 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 980514002618 S-adenosylmethionine binding site [chemical binding]; other site 980514002619 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 980514002620 AAA domain; Region: AAA_26; pfam13500 980514002621 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 980514002622 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 980514002623 RNA binding surface [nucleotide binding]; other site 980514002624 Pseudouridine synthase, Escherichia coli RluB like; Region: PseudoU_synth_RluB; cd02556 980514002625 probable active site [active] 980514002626 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 980514002627 ScpA/B protein; Region: ScpA_ScpB; cl00598 980514002628 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 980514002629 Protein of unknown function, DUF462; Region: DUF462; pfam04315 980514002630 Uncharacterized ACR, COG1399; Region: DUF177; pfam02620 980514002631 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 980514002632 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 980514002633 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 980514002634 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 980514002635 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 980514002636 NAD(P) binding site [chemical binding]; other site 980514002637 homotetramer interface [polypeptide binding]; other site 980514002638 homodimer interface [polypeptide binding]; other site 980514002639 active site 980514002640 acyl carrier protein; Provisional; Region: acpP; PRK00982 980514002641 LysM domain/BON superfamily protein; Provisional; Region: PRK11198 980514002642 BON domain; Region: BON; pfam04972 980514002643 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 980514002644 4-amino-5-hydroxymethyl-2-methyl-pyrimidine phosphate kinase (HMPP-kinase) catalyzes two consecutive phosphorylation steps in the thiamine phosphate biosynthesis pathway, leading to the synthesis of vitamin B1. The first step is the phosphorylation of...; Region: HMPP_kinase; cd01169 980514002645 dimer interface [polypeptide binding]; other site 980514002646 substrate binding site [chemical binding]; other site 980514002647 ATP binding site [chemical binding]; other site 980514002648 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 980514002649 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 980514002650 motif II; other site 980514002651 3,4-dihydroxy-2-butanone 4-phosphate synthase; Provisional; Region: ribB; PRK03353 980514002652 3,4-dihydroxy-2-butanone 4-phosphate synthase [Coenzyme metabolism]; Region: RibB; COG0108 980514002653 Domain of unknown function (DUF4401); Region: DUF4401; pfam14351 980514002654 GDYXXLXY protein; Region: GDYXXLXY; pfam14345 980514002655 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 980514002656 tetramerization interface [polypeptide binding]; other site 980514002657 active site 980514002658 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 980514002659 putative active site [active] 980514002660 catalytic residue [active] 980514002661 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 980514002662 5S rRNA interface [nucleotide binding]; other site 980514002663 CTC domain interface [polypeptide binding]; other site 980514002664 L16 interface [polypeptide binding]; other site 980514002665 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 980514002666 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 980514002667 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 980514002668 active site 980514002669 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 980514002670 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 980514002671 GHMP kinases C terminal; Region: GHMP_kinases_C; pfam08544 980514002672 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 980514002673 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 980514002674 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 980514002675 binding surface 980514002676 TPR motif; other site 980514002677 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 980514002678 binding surface 980514002679 TPR motif; other site 980514002680 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 980514002681 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 980514002682 tRNA; other site 980514002683 putative tRNA binding site [nucleotide binding]; other site 980514002684 putative NADP binding site [chemical binding]; other site 980514002685 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 980514002686 DNA primase; Validated; Region: dnaG; PRK05667 980514002687 CHC2 zinc finger; Region: zf-CHC2; pfam01807 980514002688 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 980514002689 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 980514002690 active site 980514002691 metal binding site [ion binding]; metal-binding site 980514002692 interdomain interaction site; other site 980514002693 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 980514002694 Outer membrane lipoprotein; Region: YfiO; pfam13525 980514002695 23S rRNA pseudouridine synthase D; Provisional; Region: rluD; PRK11180 980514002696 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 980514002697 RNA binding surface [nucleotide binding]; other site 980514002698 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 980514002699 active site 980514002700 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; pfam02578 980514002701 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 980514002702 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 980514002703 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 980514002704 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 980514002705 SmpB-tmRNA interface; other site 980514002706 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 980514002707 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 980514002708 active site 980514002709 Phosphate-selective porin O and P; Region: Porin_O_P; pfam07396 980514002710 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_9; cd08479 980514002711 putative effector binding pocket; other site 980514002712 putative dimerization interface [polypeptide binding]; other site 980514002713 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 980514002714 tartrate dehydrogenase; Region: TTC; TIGR02089 980514002715 putative transporter; Provisional; Region: PRK09950 980514002716 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 980514002717 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 980514002718 substrate binding pocket [chemical binding]; other site 980514002719 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 980514002720 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 980514002721 [2Fe-2S] cluster binding site [ion binding]; other site 980514002722 C-terminal catalytic domain of the oxygenase alpha subunit of an uncharacterized subgroup of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C_2; cd08886 980514002723 putative alpha subunit interface [polypeptide binding]; other site 980514002724 putative active site [active] 980514002725 putative substrate binding site [chemical binding]; other site 980514002726 Fe binding site [ion binding]; other site 980514002727 succinic semialdehyde dehydrogenase; Region: PLN02278 980514002728 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 980514002729 tetramerization interface [polypeptide binding]; other site 980514002730 NAD(P) binding site [chemical binding]; other site 980514002731 catalytic residues [active] 980514002732 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 980514002733 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 980514002734 FMN-binding pocket [chemical binding]; other site 980514002735 flavin binding motif; other site 980514002736 phosphate binding motif [ion binding]; other site 980514002737 beta-alpha-beta structure motif; other site 980514002738 NAD binding pocket [chemical binding]; other site 980514002739 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 980514002740 catalytic loop [active] 980514002741 iron binding site [ion binding]; other site 980514002742 NAD synthetase; Provisional; Region: PRK13981 980514002743 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 980514002744 multimer interface [polypeptide binding]; other site 980514002745 active site 980514002746 catalytic triad [active] 980514002747 protein interface 1 [polypeptide binding]; other site 980514002748 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 980514002749 homodimer interface [polypeptide binding]; other site 980514002750 NAD binding pocket [chemical binding]; other site 980514002751 ATP binding pocket [chemical binding]; other site 980514002752 Mg binding site [ion binding]; other site 980514002753 active-site loop [active] 980514002754 Pirin; Region: Pirin; pfam02678 980514002755 Pirin-related protein [General function prediction only]; Region: COG1741 980514002756 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 980514002757 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 980514002758 3-oxoacyl-(acyl carrier protein) synthase I; Reviewed; Region: PRK07967 980514002759 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 980514002760 dimer interface [polypeptide binding]; other site 980514002761 active site 980514002762 EcsC protein family; Region: EcsC; pfam12787 980514002763 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 980514002764 S17 interaction site [polypeptide binding]; other site 980514002765 S8 interaction site; other site 980514002766 16S rRNA interaction site [nucleotide binding]; other site 980514002767 streptomycin interaction site [chemical binding]; other site 980514002768 23S rRNA interaction site [nucleotide binding]; other site 980514002769 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 980514002770 30S ribosomal protein S7; Validated; Region: PRK05302 980514002771 elongation factor G; Reviewed; Region: PRK00007 980514002772 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 980514002773 G1 box; other site 980514002774 putative GEF interaction site [polypeptide binding]; other site 980514002775 GTP/Mg2+ binding site [chemical binding]; other site 980514002776 Switch I region; other site 980514002777 G2 box; other site 980514002778 G3 box; other site 980514002779 Switch II region; other site 980514002780 G4 box; other site 980514002781 G5 box; other site 980514002782 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 980514002783 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 980514002784 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 980514002785 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 980514002786 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 980514002787 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 980514002788 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 980514002789 ribosomal-protein-alanine N-acetyltransferase; Provisional; Region: rimI; PRK09491 980514002790 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 980514002791 Coenzyme A binding pocket [chemical binding]; other site 980514002792 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 980514002793 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 980514002794 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 980514002795 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 980514002796 thioredoxin reductase; Provisional; Region: PRK10262 980514002797 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 980514002798 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 980514002799 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 980514002800 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 980514002801 This domain directs oriented DNA translocation and forms a winged helix structure; Region: Ftsk_gamma; smart00843 980514002802 threonine efflux system; Provisional; Region: PRK10229 980514002803 Septum formation topological specificity factor MinE; Region: MinE; pfam03776 980514002804 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 980514002805 Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal...; Region: MinD; cd02036 980514002806 Switch I; other site 980514002807 Switch II; other site 980514002808 Septum formation inhibitor [Cell division and chromosome partitioning]; Region: MinC; COG0850 980514002809 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 980514002810 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 980514002811 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LCLAT1-like; Region: LPLAT_LCLAT1-like; cd07990 980514002812 putative acyl-acceptor binding pocket; other site 980514002813 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 980514002814 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 980514002815 ligand binding site [chemical binding]; other site 980514002816 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 980514002817 Part of AAA domain; Region: AAA_19; pfam13245 980514002818 Family description; Region: UvrD_C_2; pfam13538 980514002819 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 980514002820 trimer interface [polypeptide binding]; other site 980514002821 active site 980514002822 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 980514002823 The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a...; Region: PMM_PGM; cd03089 980514002824 active site 980514002825 substrate binding site [chemical binding]; other site 980514002826 metal binding site [ion binding]; metal-binding site 980514002827 AAK_NAGK-C: N-Acetyl-L-glutamate kinase - cyclic (NAGK-C) catalyzes the phosphorylation of the gamma-COOH group of N-acetyl-L-glutamate (NAG) by ATP in the second step of arginine biosynthesis found in some bacteria and photosynthetic organisms using the...; Region: AAK_NAGK-C; cd04250 980514002828 feedback inhibition sensing region; other site 980514002829 homohexameric interface [polypeptide binding]; other site 980514002830 nucleotide binding site [chemical binding]; other site 980514002831 N-acetyl-L-glutamate binding site [chemical binding]; other site 980514002832 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 980514002833 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 980514002834 Glutamine amidotransferases class-II (Gn-AT)_YafJ-type. YafJ is a glutamine amidotransferase-like protein of unknown function found in prokaryotes, eukaryotes and archaea. YafJ has a conserved structural fold similar to those of other class II...; Region: YafJ; cd01908 980514002835 putative dimer interface [polypeptide binding]; other site 980514002836 putative active site [active] 980514002837 Hemerythrin; Region: Hemerythrin; cd12107 980514002838 Fe binding site [ion binding]; other site 980514002839 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 980514002840 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 980514002841 hypothetical protein; Validated; Region: PRK01777 980514002842 outer membrane biogenesis protein BamE; Provisional; Region: PRK11548 980514002843 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 980514002844 ferric uptake regulator; Provisional; Region: fur; PRK09462 980514002845 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 980514002846 metal binding site 2 [ion binding]; metal-binding site 980514002847 putative DNA binding helix; other site 980514002848 metal binding site 1 [ion binding]; metal-binding site 980514002849 dimer interface [polypeptide binding]; other site 980514002850 structural Zn2+ binding site [ion binding]; other site 980514002851 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 980514002852 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 980514002853 Walker A motif; other site 980514002854 ATP binding site [chemical binding]; other site 980514002855 Walker B motif; other site 980514002856 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 980514002857 Pilus retraction ATPase PilT. PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism...; Region: PilT; cd01131 980514002858 Walker A motif; other site 980514002859 ATP binding site [chemical binding]; other site 980514002860 Walker B motif; other site 980514002861 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 980514002862 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 980514002863 catalytic residue [active] 980514002864 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 980514002865 Walker A/P-loop; other site 980514002866 ATP binding site [chemical binding]; other site 980514002867 Q-loop/lid; other site 980514002868 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 980514002869 ABC transporter signature motif; other site 980514002870 Walker B; other site 980514002871 D-loop; other site 980514002872 H-loop/switch region; other site 980514002873 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 980514002874 Mre11 nuclease, N-terminal metallophosphatase domain; Region: MPP_Mre11_N; cd00840 980514002875 active site 980514002876 metal binding site [ion binding]; metal-binding site 980514002877 DNA binding site [nucleotide binding] 980514002878 Type 5 capsule protein repressor C-terminal domain; Region: SbcD_C; pfam12320 980514002879 Organic hydroperoxide reductase [Secondary metabolites biosynthesis, transport and catabolism]; Region: osmC; COG1764 980514002880 N-terminal domain of Streptomyces griseus SgaA (suppression of growth disturbance caused by A-factor at a high concentration under high osmolality during early growth phase), and similar domains; Region: SgaA_N_like; cd07247 980514002881 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 980514002882 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 980514002883 Predicted nucleoside-diphosphate sugar epimerase [General function prediction only]; Region: COG1090 980514002884 NAD(P) binding site [chemical binding]; other site 980514002885 active site 980514002886 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 980514002887 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 980514002888 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 980514002889 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 980514002890 dimer interface [polypeptide binding]; other site 980514002891 allosteric magnesium binding site [ion binding]; other site 980514002892 active site 980514002893 aspartate-rich active site metal binding site; other site 980514002894 Schiff base residues; other site 980514002895 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 980514002896 CoenzymeA binding site [chemical binding]; other site 980514002897 subunit interaction site [polypeptide binding]; other site 980514002898 PHB binding site; other site 980514002899 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 980514002900 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 980514002901 HlyD family secretion protein; Region: HlyD_3; pfam13437 980514002902 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 980514002903 Major Facilitator Superfamily; Region: MFS_1; pfam07690 980514002904 putative substrate translocation pore; other site 980514002905 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 980514002906 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 980514002907 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 980514002908 integrase; Provisional; Region: PRK09692 980514002909 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 980514002910 active site 980514002911 Int/Topo IB signature motif; other site 980514002912 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 980514002913 putative catalytic site [active] 980514002914 putative phosphate binding site [ion binding]; other site 980514002915 putative metal binding site [ion binding]; other site 980514002916 FRG domain; Region: FRG; pfam08867 980514002917 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 980514002918 Predicted transcriptional regulator [Transcription]; Region: COG2932 980514002919 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 980514002920 Catalytic site [active] 980514002921 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 980514002922 Active Sites [active] 980514002923 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 980514002924 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 980514002925 cofactor binding site; other site 980514002926 DNA binding site [nucleotide binding] 980514002927 substrate interaction site [chemical binding]; other site 980514002928 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 980514002929 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 980514002930 Walker A motif; other site 980514002931 ATP binding site [chemical binding]; other site 980514002932 Walker B motif; other site 980514002933 arginine finger; other site 980514002934 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 980514002935 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 980514002936 non-specific DNA binding site [nucleotide binding]; other site 980514002937 salt bridge; other site 980514002938 sequence-specific DNA binding site [nucleotide binding]; other site 980514002939 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 980514002940 P22_AR N-terminal domain; Region: P22_AR_N; pfam10547 980514002941 putative pectinesterase; Region: PLN02432; cl01911 980514002942 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 980514002943 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl17442 980514002944 protein-splicing catalytic site; other site 980514002945 thioester formation/cholesterol transfer; other site 980514002946 P22_AR N-terminal domain; Region: P22_AR_N; pfam10547 980514002947 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 980514002948 Uncharacterized archaeal coiled-coil protein [Function unknown]; Region: COG1340 980514002949 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 980514002950 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 980514002951 Predicted Zn peptidase [Amino acid transport and metabolism]; Region: COG2856 980514002952 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 980514002953 Ribosomal protein S27; Region: Ribosomal_S27e; cl00897 980514002954 Putative transposase; Region: Y2_Tnp; pfam04986 980514002955 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 980514002956 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 980514002957 TIGR02594 family protein; Region: TIGR02594 980514002958 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 980514002959 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 980514002960 active site 980514002961 DNA binding site [nucleotide binding] 980514002962 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 980514002963 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 980514002964 Catalytic site [active] 980514002965 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 980514002966 glutamyl-tRNA reductase; Provisional; Region: PRK13940 980514002967 integrase; Provisional; Region: PRK09692 980514002968 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 980514002969 active site 980514002970 Int/Topo IB signature motif; other site 980514002971 Helix-turn-helix domain; Region: HTH_39; pfam14090 980514002972 Prophage antirepressor [Transcription]; Region: COG3617 980514002973 BRO family, N-terminal domain; Region: Bro-N; smart01040 980514002974 Domain of unknown function (DUF927); Region: DUF927; pfam06048 980514002975 Nucleoid-associated protein [General function prediction only]; Region: COG3081 980514002976 37-kD nucleoid-associated bacterial protein; Region: NA37; pfam04245 980514002977 Glycosyl hydrolase families: GH43, GH62, GH32, GH68; Region: GH43_62_32_68; cl14647 980514002978 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 980514002979 Predicted P-loop ATPase [General function prediction only]; Region: COG4928 980514002980 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 980514002981 Ligand Binding Site [chemical binding]; other site 980514002982 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 980514002983 active site 980514002984 Dock Homology Region 2, a GEF domain, of Dedicator of Cytokinesis proteins; Region: DHR2_DOCK; cl06123 980514002985 outer membrane porin, OprD family; Region: OprD; pfam03573 980514002986 outer membrane porin, OprD family; Region: OprD; pfam03573 980514002987 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 980514002988 benzoate transport; Region: 2A0115; TIGR00895 980514002989 putative substrate translocation pore; other site 980514002990 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 980514002991 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 980514002992 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 980514002993 inhibitor site; inhibition site 980514002994 active site 980514002995 dimer interface [polypeptide binding]; other site 980514002996 catalytic residue [active] 980514002997 Transcriptional regulator [Transcription]; Region: LysR; COG0583 980514002998 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514002999 The C-teminal substrate binding domain of LysR-like nitrogen assimilation control (NAC) protein, contains the type 2 periplasmic binding fold; Region: PBP2_Nac; cd08433 980514003000 putative dimerization interface [polypeptide binding]; other site 980514003001 RNA polymerase sigma factor; Reviewed; Region: PRK12523 980514003002 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 980514003003 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 980514003004 DNA binding residues [nucleotide binding] 980514003005 Fe2+-dicitrate sensor, membrane component [Inorganic ion transport and metabolism / Signal transduction mechanisms]; Region: FecR; COG3712 980514003006 FecR protein; Region: FecR; pfam04773 980514003007 Secretin and TonB N terminus short domain; Region: STN; pfam07660 980514003008 TonB-dependent hemoglobin/transferrin/lactoferrin receptor family protein; Region: TonB-hemlactrns; TIGR01786 980514003009 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 980514003010 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 980514003011 TPR repeat; Region: TPR_11; pfam13414 980514003012 Protein of unknown function (DUF560); Region: DUF560; pfam04575 980514003013 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 980514003014 Heme oxygenase catalyzes the rate limiting step in the degradation of heme to bilirubin, it is essential for recycling of iron from heme. Heme is used as a substrate and cofactor for its own degradation to biliverdin, iron, and carbon monoxide. This...; Region: HemeO; cd00232 980514003015 heme binding pocket [chemical binding]; other site 980514003016 heme ligand [chemical binding]; other site 980514003017 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 980514003018 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 980514003019 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 980514003020 PGAP1-like protein; Region: PGAP1; pfam07819 980514003021 arginine-ornithine antiporter; Region: arg_ornith_anti; TIGR03810 980514003022 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 980514003023 Homocysteine/selenocysteine methylase (S-methylmethionine-dependent) [Amino acid transport and metabolism]; Region: MHT1; COG2040 980514003024 malate:quinone oxidoreductase; Validated; Region: PRK05257 980514003025 malate:quinone-oxidoreductase; Region: mal_quin_oxido; TIGR01320 980514003026 choline dehydrogenase; Validated; Region: PRK02106 980514003027 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 980514003028 betaine aldehyde dehydrogenase; Provisional; Region: PRK13252 980514003029 NAD+-dependent 4-trimethylaminobutyraldehyde dehydrogenase, ALDH family 9A1; Region: ALDH_F9_TMBADH; cd07090 980514003030 tetrameric interface [polypeptide binding]; other site 980514003031 NAD binding site [chemical binding]; other site 980514003032 catalytic residues [active] 980514003033 transcriptional regulator BetI; Validated; Region: PRK00767 980514003034 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 980514003035 Bacterial transcriptional repressor; Region: TetR_C_6; pfam13977 980514003036 BCCT family transporter; Region: BCCT; pfam02028 980514003037 choline transport protein BetT; Provisional; Region: PRK09928 980514003038 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 980514003039 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 980514003040 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 980514003041 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 980514003042 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK13027 980514003043 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 980514003044 YaeQ protein; Region: YaeQ; pfam07152 980514003045 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 980514003046 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 980514003047 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 980514003048 N-terminal putative catalytic polysaccharide deacetylase domain of bacterial poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB, and similar proteins; Region: CE4_PgaB_5s; cd10964 980514003049 putative active site [active] 980514003050 putative metal binding site [ion binding]; other site 980514003051 N-glycosyltransferase; Provisional; Region: PRK11204 980514003052 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 980514003053 DXD motif; other site 980514003054 PgaD-like protein; Region: PgaD; pfam13994 980514003055 enoyl-CoA hydratase; Provisional; Region: PRK06563 980514003056 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 980514003057 substrate binding site [chemical binding]; other site 980514003058 oxyanion hole (OAH) forming residues; other site 980514003059 trimer interface [polypeptide binding]; other site 980514003060 Nicotinamide mononucleotide transporter; Region: NMN_transporter; pfam04973 980514003061 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 980514003062 Transcriptional regulator [Transcription]; Region: IclR; COG1414 980514003063 Bacterial transcriptional regulator; Region: IclR; pfam01614 980514003064 Rieske non-heme iron oxygenase (RO) family, Rieske ferredoxin component; composed of the Rieske ferredoxin component of some three-component RO systems including biphenyl dioxygenase (BPDO) and carbazole 1,9a-dioxygenase (CARDO). The RO family comprise a...; Region: Rieske_RO_ferredoxin; cd03528 980514003065 [2Fe-2S] cluster binding site [ion binding]; other site 980514003066 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 980514003067 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 980514003068 [2Fe-2S] cluster binding site [ion binding]; other site 980514003069 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 980514003070 hydrophobic ligand binding site; other site 980514003071 short chain dehydrogenase; Provisional; Region: PRK12939 980514003072 classical (c) SDRs; Region: SDR_c; cd05233 980514003073 NAD(P) binding site [chemical binding]; other site 980514003074 active site 980514003075 C-terminal domain of Burkholderia sp. NF100 MhqB and similar proteins; MhqB is a type I extradiol dioxygenase involved in the catabolism of methylhydroquinone, an intermediate in the degradation of fenitrothion; Region: MhqB_like_C; cd08360 980514003076 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 980514003077 putative active site [active] 980514003078 putative metal binding site [ion binding]; other site 980514003079 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 980514003080 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 980514003081 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 980514003082 D-galactonate transporter; Region: 2A0114; TIGR00893 980514003083 putative substrate translocation pore; other site 980514003084 Cupin domain; Region: Cupin_2; pfam07883 980514003085 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 980514003086 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 980514003087 short chain dehydrogenase; Provisional; Region: PRK07062 980514003088 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 980514003089 putative NAD(P) binding site [chemical binding]; other site 980514003090 putative active site [active] 980514003091 L-aspartate dehydrogenase; Provisional; Region: PRK13303 980514003092 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 980514003093 Domain of unknown function DUF108; Region: DUF108; pfam01958 980514003094 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 980514003095 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 980514003096 NAD(P) binding site [chemical binding]; other site 980514003097 catalytic residues [active] 980514003098 hypothetical protein; Provisional; Region: PRK07064 980514003099 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 980514003100 PYR/PP interface [polypeptide binding]; other site 980514003101 dimer interface [polypeptide binding]; other site 980514003102 TPP binding site [chemical binding]; other site 980514003103 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 980514003104 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cd00568 980514003105 TPP-binding site [chemical binding]; other site 980514003106 metabolite-proton symporter; Region: 2A0106; TIGR00883 980514003107 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 980514003108 putative substrate translocation pore; other site 980514003109 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 980514003110 active site 980514003111 catalytic residues [active] 980514003112 metal binding site [ion binding]; metal-binding site 980514003113 glutaminase; Provisional; Region: PRK00971 980514003114 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 980514003115 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 980514003116 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 980514003117 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 980514003118 putative substrate translocation pore; other site 980514003119 Major Facilitator Superfamily; Region: MFS_1; pfam07690 980514003120 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 980514003121 active site 980514003122 catalytic residues [active] 980514003123 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 980514003124 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514003125 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 980514003126 dimerization interface [polypeptide binding]; other site 980514003127 substrate binding pocket [chemical binding]; other site 980514003128 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 980514003129 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 980514003130 NAD(P) binding site [chemical binding]; other site 980514003131 active site 980514003132 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 980514003133 D-galactonate transporter; Region: 2A0114; TIGR00893 980514003134 putative substrate translocation pore; other site 980514003135 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 980514003136 TPP-binding site [chemical binding]; other site 980514003137 dimer interface [polypeptide binding]; other site 980514003138 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 980514003139 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 980514003140 PYR/PP interface [polypeptide binding]; other site 980514003141 dimer interface [polypeptide binding]; other site 980514003142 TPP binding site [chemical binding]; other site 980514003143 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 980514003144 B12-dependent methionine synthase; Provisional; Region: metH; PRK09490 980514003145 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 980514003146 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 980514003147 substrate binding pocket [chemical binding]; other site 980514003148 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 980514003149 B12 binding site [chemical binding]; other site 980514003150 cobalt ligand [ion binding]; other site 980514003151 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 980514003152 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 980514003153 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 980514003154 D-Serine dehydratase is a pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of L- or D-serine to pyruvate and ammonia. D-serine dehydratase serves as a detoxifying enzyme in most E. coli strains where D-serine is a competitive...; Region: D-Ser-dehyd; cd06447 980514003155 Pyridoxal-phosphate dependent enzyme; Region: PALP; pfam00291 980514003156 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 980514003157 catalytic residue [active] 980514003158 Uncharacterized conserved protein [Function unknown]; Region: COG1262 980514003159 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 980514003160 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 980514003161 Sulfatase; Region: Sulfatase; pfam00884 980514003162 Rhomboid family; Region: Rhomboid; cl11446 980514003163 Fe-S cluster assembly scaffold protein [Posttranslational modification, protein turnover, chaperones]; Region: sufA; COG0316 980514003164 IscR-regulated protein YhgI; Region: YhgI_GntY; TIGR03341 980514003165 Thioredoxin-like proteins and domains [Posttranslational modification, protein turnover, chaperones]; Region: COG0694 980514003166 outer membrane receptor FepA; Provisional; Region: PRK13524 980514003167 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 980514003168 N-terminal plug; other site 980514003169 ligand-binding site [chemical binding]; other site 980514003170 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 980514003171 Lipase. Lipases are esterases that can hydrolyze long-chain acyl-triglycerides into di- and monoglycerides, glycerol, and free fatty acids at a water/lipid interface. A typical feature of lipases is "interfacial activation", the process of...; Region: Lipase; cl14883 980514003172 nucleophilic elbow; other site 980514003173 catalytic triad; other site 980514003174 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeC; cd03378 980514003175 active site clefts [active] 980514003176 zinc binding site [ion binding]; other site 980514003177 dimer interface [polypeptide binding]; other site 980514003178 Lysophospholipase L1-like subgroup of SGNH-hydrolases. The best characterized member in this family is TesA, an E. coli periplasmic protein with thioesterase, esterase, arylesterase, protease and lysophospholipase activity; Region: Lysophospholipase_L1_like; cd01822 980514003179 active site 980514003180 catalytic triad [active] 980514003181 oxyanion hole [active] 980514003182 switch loop; other site 980514003183 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG4181 980514003184 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 980514003185 Walker A/P-loop; other site 980514003186 ATP binding site [chemical binding]; other site 980514003187 Q-loop/lid; other site 980514003188 ABC transporter signature motif; other site 980514003189 Walker B; other site 980514003190 D-loop; other site 980514003191 H-loop/switch region; other site 980514003192 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 980514003193 FtsX-like permease family; Region: FtsX; pfam02687 980514003194 FtsX-like permease family; Region: FtsX; pfam02687 980514003195 Rhomboid family; Region: Rhomboid; pfam01694 980514003196 monofunctional biosynthetic peptidoglycan transglycosylase; Provisional; Region: mtgA; PRK00056 980514003197 Transglycosylase; Region: Transgly; cl17702 980514003198 polyphosphate kinase; Provisional; Region: PRK05443 980514003199 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 980514003200 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 980514003201 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 980514003202 putative active site [active] 980514003203 catalytic site [active] 980514003204 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 980514003205 putative active site [active] 980514003206 putative domain interface [polypeptide binding]; other site 980514003207 catalytic site [active] 980514003208 Sporulation related domain; Region: SPOR; cl10051 980514003209 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 980514003210 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514003211 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 980514003212 dimerization interface [polypeptide binding]; other site 980514003213 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 980514003214 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 980514003215 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 980514003216 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 980514003217 Rubredoxin [Energy production and conversion]; Region: COG1773 980514003218 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 980514003219 iron binding site [ion binding]; other site 980514003220 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 980514003221 putative hydrophobic ligand binding site [chemical binding]; other site 980514003222 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 980514003223 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 980514003224 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 980514003225 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 980514003226 dimer interface [polypeptide binding]; other site 980514003227 putative anticodon binding site; other site 980514003228 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 980514003229 motif 1; other site 980514003230 active site 980514003231 motif 2; other site 980514003232 motif 3; other site 980514003233 Capsule assembly protein Wzi; Region: Caps_assemb_Wzi; pfam14052 980514003234 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 980514003235 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 980514003236 Active Sites [active] 980514003237 sulfate adenylyltransferase subunit 1; Provisional; Region: cysN; PRK05124 980514003238 CysN, together with protein CysD, forms the ATP sulfurylase (ATPS) complex; Region: CysN_ATPS; cd04166 980514003239 CysD dimerization site [polypeptide binding]; other site 980514003240 G1 box; other site 980514003241 putative GEF interaction site [polypeptide binding]; other site 980514003242 GTP/Mg2+ binding site [chemical binding]; other site 980514003243 Switch I region; other site 980514003244 G2 box; other site 980514003245 G3 box; other site 980514003246 Switch II region; other site 980514003247 G4 box; other site 980514003248 G5 box; other site 980514003249 CysN_NodQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NodQ_II; cd03695 980514003250 TCysN_NoDQ_II: This subfamily represents the domain II of the large subunit of ATP sulfurylase (ATPS): CysN or the N-terminal portion of NodQ, found mainly in proteobacteria and homologous to the domain II of EF-Tu. Escherichia coli ATPS consists of CysN...; Region: CysN_NoDQ_III; cd04095 980514003251 Uncharacterized protein conserved in bacteria (DUF2239); Region: DUF2239; pfam09998 980514003252 H+/citrate symporter [Energy production and conversion]; Region: CitM; COG2851 980514003253 Citrate transporter; Region: CitMHS; pfam03600 980514003254 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 980514003255 Domain of unknown function DUF21; Region: DUF21; pfam01595 980514003256 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 980514003257 Transporter associated domain; Region: CorC_HlyC; smart01091 980514003258 Transcriptional regulator [Transcription]; Region: LysR; COG0583 980514003259 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514003260 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 980514003261 substrate binding pocket [chemical binding]; other site 980514003262 dimerization interface [polypeptide binding]; other site 980514003263 Members of the ICL/PEPM enzyme family catalyze either P-C or C-C bond formation/cleavage. Known members are phosphoenolpyruvate mutase (PEPM), phosphonopyruvate hydrolase (PPH), carboxyPEP mutase (CPEP mutase), oxaloacetate hydrolase (OAH), isocitrate...; Region: ICL_PEPM; cd00377 980514003264 tetramer interface [polypeptide binding]; other site 980514003265 active site 980514003266 Mg2+/Mn2+ binding site [ion binding]; other site 980514003267 isocitrate lyase; Region: PLN02892 980514003268 Uncharacterized lipoprotein NlpE involved in copper resistance [Cell envelope biogenesis, outer membrane / Inorganic ion transport and metabolism]; Region: CutF; COG3015 980514003269 NlpE N-terminal domain; Region: NlpE; pfam04170 980514003270 UreD urease accessory protein; Region: UreD; pfam01774 980514003271 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 980514003272 alpha-gamma subunit interface [polypeptide binding]; other site 980514003273 beta-gamma subunit interface [polypeptide binding]; other site 980514003274 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 980514003275 gamma-beta subunit interface [polypeptide binding]; other site 980514003276 alpha-beta subunit interface [polypeptide binding]; other site 980514003277 urease subunit alpha; Reviewed; Region: ureC; PRK13207 980514003278 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 980514003279 subunit interactions [polypeptide binding]; other site 980514003280 active site 980514003281 flap region; other site 980514003282 urease accessory protein UreE; Provisional; Region: ureE; PRK13261 980514003283 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 980514003284 dimer interface [polypeptide binding]; other site 980514003285 catalytic residues [active] 980514003286 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 980514003287 UreF; Region: UreF; pfam01730 980514003288 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 980514003289 HupE / UreJ protein; Region: HupE_UreJ; pfam04955 980514003290 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 980514003291 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 980514003292 S-adenosylmethionine binding site [chemical binding]; other site 980514003293 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 980514003294 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 980514003295 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 980514003296 adenylate kinase; Reviewed; Region: adk; PRK00279 980514003297 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 980514003298 AMP-binding site [chemical binding]; other site 980514003299 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 980514003300 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 980514003301 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 980514003302 minor groove reading motif; other site 980514003303 helix-hairpin-helix signature motif; other site 980514003304 substrate binding pocket [chemical binding]; other site 980514003305 active site 980514003306 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; pfam10576 980514003307 ferredoxin; Provisional; Region: PRK08764 980514003308 Putative Fe-S cluster; Region: FeS; cl17515 980514003309 4Fe-4S binding domain; Region: Fer4; pfam00037 980514003310 glutamate dehydrogenase; Provisional; Region: PRK09414 980514003311 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 980514003312 NAD(P) binding domain of glutamate dehydrogenase, subgroup 2; Region: NAD_bind_2_Glu_DH; cd05313 980514003313 NAD(P) binding site [chemical binding]; other site 980514003314 META domain; Region: META; pfam03724 980514003315 META domain; Region: META; pfam03724 980514003316 Domain of unknown function (DUF4377); Region: DUF4377; pfam14302 980514003317 The Class III extradiol dioxygenase, 4,5-DOPA Dioxygenase, catalyzes the incorporation of both atoms of molecular oxygen into 4,5-dihydroxy-phenylalanine; Region: 45_DOPA_Dioxygenase; cd07363 980514003318 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 980514003319 putative active site [active] 980514003320 metal binding site [ion binding]; metal-binding site 980514003321 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 980514003322 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 980514003323 Found in ATP-dependent protease La (LON); Region: LON; smart00464 980514003324 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 980514003325 Walker A motif; other site 980514003326 ATP binding site [chemical binding]; other site 980514003327 Walker B motif; other site 980514003328 arginine finger; other site 980514003329 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 980514003330 Haemagglutinin; Region: HIM; pfam05662 980514003331 YadA-like C-terminal region; Region: YadA; pfam03895 980514003332 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 980514003333 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 980514003334 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 980514003335 ligand binding site [chemical binding]; other site 980514003336 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 980514003337 5,10-methenyltetrahydrofolate synthetase; Region: MTHFS_bact; TIGR02727 980514003338 serine hydroxymethyltransferase; Reviewed; Region: PRK13034 980514003339 Helix-turn-helix domain; Region: HTH_17; cl17695 980514003340 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 980514003341 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 980514003342 non-specific DNA binding site [nucleotide binding]; other site 980514003343 salt bridge; other site 980514003344 sequence-specific DNA binding site [nucleotide binding]; other site 980514003345 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 980514003346 Catalytic site [active] 980514003347 Bacteriophage replication protein O; Region: Phage_rep_O; cl04545 980514003348 Superfamily of nucleases including Short Patch Repair (Vsr) Endonucleases, archaeal Holliday junction resolvases, MutH methy-directed DNA mismatch-repair endonucleases, and catalytic domains of many restriction endonucleases, such as EcoRI, BamHI, and...; Region: Restriction_endonuclease_like; cl00277 980514003349 putative active site [active] 980514003350 Uncharacterized conserved protein (DUF2280); Region: DUF2280; pfam10045 980514003351 Phage terminase large subunit; Region: Terminase_3; cl12054 980514003352 Terminase-like family; Region: Terminase_6; pfam03237 980514003353 Domain of unknown function (DUF4055); Region: DUF4055; pfam13264 980514003354 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 980514003355 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 980514003356 Phage protein (N4 Gp49/phage Sf6 gene 66) family; Region: Phage_gp49_66; pfam13876 980514003357 phage major capsid protein, HK97 family; Region: major_cap_HK97; TIGR01554 980514003358 LEM-like domain of lamina-associated polypeptide 2 (LAP2) and similar proteins; Region: LEM_like; cd12935 980514003359 Peptidase of plants and bacteria; Region: BSP; pfam04450 980514003360 Bacteriophage related domain of unknown function; Region: DUF4128; pfam13554 980514003361 Bacterial SH3 domain homologues; Region: SH3b; smart00287 980514003362 DNA-binding transcriptional activator MhpR; Provisional; Region: PRK09834 980514003363 Domain of unknown function (DUF4258); Region: DUF4258; pfam14076 980514003364 Predicted transcriptional regulator [Transcription]; Region: COG2944 980514003365 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 980514003366 non-specific DNA binding site [nucleotide binding]; other site 980514003367 salt bridge; other site 980514003368 sequence-specific DNA binding site [nucleotide binding]; other site 980514003369 Phage-related minor tail protein [Function unknown]; Region: COG5281 980514003370 tape measure domain; Region: tape_meas_nterm; TIGR02675 980514003371 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 980514003372 Peptidase family M23; Region: Peptidase_M23; pfam01551 980514003373 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 980514003374 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 980514003375 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 980514003376 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 980514003377 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 980514003378 putative metal dependent hydrolase; Provisional; Region: PRK11598 980514003379 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 980514003380 Sulfatase; Region: Sulfatase; pfam00884 980514003381 Sulfatase; Region: Sulfatase; cl17466 980514003382 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 980514003383 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 980514003384 active site 980514003385 Int/Topo IB signature motif; other site 980514003386 DNA binding site [nucleotide binding] 980514003387 Helix-turn-helix domain; Region: HTH_17; cl17695 980514003388 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 980514003389 catalytic site [active] 980514003390 Asp-box motif; other site 980514003391 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; COG3808 980514003392 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 980514003393 catalytic residues [active] 980514003394 hypothetical protein; Validated; Region: PRK00110 980514003395 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 980514003396 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 980514003397 putative acyl-acceptor binding pocket; other site 980514003398 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 980514003399 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 980514003400 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 980514003401 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 980514003402 active site 980514003403 catalytic residues [active] 980514003404 Int/Topo IB signature motif; other site 980514003405 DNA binding site [nucleotide binding] 980514003406 Transcriptional regulator [Transcription]; Region: LysR; COG0583 980514003407 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514003408 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 980514003409 dimerization interface [polypeptide binding]; other site 980514003410 Predicted membrane protein [Function unknown]; Region: COG4125 980514003411 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 980514003412 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 980514003413 Purine-cytosine permease and related proteins [Nucleotide transport and metabolism]; Region: CodB; COG1457 980514003414 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 980514003415 Na binding site [ion binding]; other site 980514003416 EamA-like transporter family; Region: EamA; pfam00892 980514003417 Transcriptional regulator [Transcription]; Region: LysR; COG0583 980514003418 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514003419 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 980514003420 dimerization interface [polypeptide binding]; other site 980514003421 putative major fimbrial protein SthE; Provisional; Region: PRK15292 980514003422 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 980514003423 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 980514003424 PapC N-terminal domain; Region: PapC_N; pfam13954 980514003425 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 980514003426 PapC C-terminal domain; Region: PapC_C; pfam13953 980514003427 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 980514003428 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 980514003429 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 980514003430 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 980514003431 biotin synthase; Provisional; Region: PRK15108 980514003432 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 980514003433 FeS/SAM binding site; other site 980514003434 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 980514003435 epoxyqueuosine reductase; Region: TIGR00276 980514003436 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 980514003437 putative carbohydrate kinase; Provisional; Region: PRK10565 980514003438 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 980514003439 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 980514003440 putative substrate binding site [chemical binding]; other site 980514003441 putative ATP binding site [chemical binding]; other site 980514003442 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 980514003443 active site 980514003444 putative DNA-binding cleft [nucleotide binding]; other site 980514003445 dimer interface [polypeptide binding]; other site 980514003446 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 980514003447 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 980514003448 non-specific DNA binding site [nucleotide binding]; other site 980514003449 salt bridge; other site 980514003450 sequence-specific DNA binding site [nucleotide binding]; other site 980514003451 Cupin domain; Region: Cupin_2; cl17218 980514003452 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 980514003453 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 980514003454 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 980514003455 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 980514003456 K+ potassium transporter; Region: K_trans; cl15781 980514003457 lysozyme_like domain. This contains several members including Soluble Lytic Transglycosylases (SLT), Goose Egg-White Lysozymes (GEWL), Hen Egg-White Lysozymes (HEWL), chitinases, bacteriophage lambda lysozymes, endolysins, autolysins, and chitosanases; Region: lysozyme_like; cl00222 980514003458 catalytic residue [active] 980514003459 Fungal domain of unknown function (DUF1750); Region: SWI-SNF_Ssr4; pfam08549 980514003460 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 980514003461 active site 980514003462 DNA binding site [nucleotide binding] 980514003463 Int/Topo IB signature motif; other site 980514003464 Cell division protein ZapA; Region: ZapA; pfam05164 980514003465 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 980514003466 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 980514003467 proline aminopeptidase P II; Provisional; Region: PRK10879 980514003468 Prolidase. E.C. 3.4.13.9. Also known as Xaa-Pro dipeptidase, X-Pro dipeptidase, proline dipeptidase., imidodipeptidase, peptidase D, gamma-peptidase. Catalyses hydrolysis of Xaa-Pro dipeptides; also acts on aminoacyl-hydroxyproline analogs. No action on...; Region: Prolidase; cd01087 980514003469 active site 980514003470 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 980514003471 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 980514003472 Ubiquinone biosynthesis hydroxylase, UbiH/UbiF/VisC/COQ6 family; Region: Ubi-OHases; TIGR01988 980514003473 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 980514003474 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 980514003475 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 980514003476 DNA binding residues [nucleotide binding] 980514003477 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 980514003478 Lysine efflux permease [General function prediction only]; Region: COG1279 980514003479 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 980514003480 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514003481 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 980514003482 dimerization interface [polypeptide binding]; other site 980514003483 Menaquinone biosynthesis; Region: VitK2_biosynth; cl17475 980514003484 Predicted methyltransferases [General function prediction only]; Region: COG0313 980514003485 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 980514003486 putative SAM binding site [chemical binding]; other site 980514003487 putative homodimer interface [polypeptide binding]; other site 980514003488 hypothetical protein; Provisional; Region: PRK14674 980514003489 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 980514003490 BON domain; Region: BON; pfam04972 980514003491 Esterases and lipases (includes fungal lipases, cholinesterases, etc.) These enzymes act on carboxylic esters (EC: 3.1.1.-). The catalytic apparatus involves three residues (catalytic triad): a serine, a glutamate or aspartate and a histidine.These...; Region: Esterase_lipase; cd00312 980514003492 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 980514003493 substrate binding pocket [chemical binding]; other site 980514003494 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 980514003495 NADH pyrophosphatase-like rudimentary NUDIX domain; Region: NUDIX-like; pfam09296 980514003496 NADH pyrophosphatase; Reviewed; Region: nudC; PRK00241 980514003497 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 980514003498 NADH pyrophosphatase, a member of the Nudix hydrolase superfamily, catalyzes the cleavage of NADH into reduced nicotinamide mononucleotide (NMNH) and AMP. Like other members of the Nudix family, it requires a divalent cation, such as Mg2+ or Mn2+, for...; Region: NADH_pyrophosphatase; cd03429 980514003499 putative NADH binding site [chemical binding]; other site 980514003500 putative active site [active] 980514003501 nudix motif; other site 980514003502 putative metal binding site [ion binding]; other site 980514003503 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 980514003504 RNA/DNA hybrid binding site [nucleotide binding]; other site 980514003505 active site 980514003506 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 980514003507 DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins; Region: DNA_pol_III_epsilon_Ecoli_like; cd06131 980514003508 active site 980514003509 catalytic site [active] 980514003510 substrate binding site [chemical binding]; other site 980514003511 membrane-bound lytic murein transglycosylase D; Provisional; Region: mltD; PRK10783 980514003512 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 980514003513 N-acetyl-D-glucosamine binding site [chemical binding]; other site 980514003514 catalytic residue [active] 980514003515 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 980514003516 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 980514003517 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 980514003518 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 980514003519 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 980514003520 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 980514003521 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 980514003522 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 980514003523 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 980514003524 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 980514003525 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 980514003526 ABC-type oligopeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: OppA; COG4166 980514003527 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_14; cd08497 980514003528 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cl01709 980514003529 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 980514003530 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 980514003531 dimer interface [polypeptide binding]; other site 980514003532 conserved gate region; other site 980514003533 ABC-ATPase subunit interface; other site 980514003534 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 980514003535 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 980514003536 dimer interface [polypeptide binding]; other site 980514003537 conserved gate region; other site 980514003538 putative PBP binding loops; other site 980514003539 ABC-ATPase subunit interface; other site 980514003540 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 980514003541 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 980514003542 Walker A/P-loop; other site 980514003543 ATP binding site [chemical binding]; other site 980514003544 Q-loop/lid; other site 980514003545 ABC transporter signature motif; other site 980514003546 Walker B; other site 980514003547 D-loop; other site 980514003548 H-loop/switch region; other site 980514003549 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 980514003550 Walker A/P-loop; other site 980514003551 ATP binding site [chemical binding]; other site 980514003552 Q-loop/lid; other site 980514003553 ABC transporter signature motif; other site 980514003554 Walker B; other site 980514003555 D-loop; other site 980514003556 H-loop/switch region; other site 980514003557 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 980514003558 Old yellow enzyme (OYE)-related FMN binding domain, group 2. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_2_FMN; cd04733 980514003559 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 980514003560 putative active site [active] 980514003561 putative FMN binding site [chemical binding]; other site 980514003562 putative substrate binding site [chemical binding]; other site 980514003563 putative catalytic residue [active] 980514003564 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 980514003565 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 980514003566 N-terminal plug; other site 980514003567 ligand-binding site [chemical binding]; other site 980514003568 DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]; Region: DnaQ; COG0847 980514003569 DEDDh 3'-5' exonuclease domain of RNase T; Region: RNaseT; cd06134 980514003570 dimer interface [polypeptide binding]; other site 980514003571 catalytic site [active] 980514003572 putative active site [active] 980514003573 putative substrate binding site [chemical binding]; other site 980514003574 Dihydroorotase (DHOase) catalyzes the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in the pyrimidine biosynthesis. In contrast to the large polyfunctional CAD proteins of higher organisms, this group of DHOases is...; Region: DHOase; cd01294 980514003575 active site 980514003576 substrate binding pocket [chemical binding]; other site 980514003577 dimer interface [polypeptide binding]; other site 980514003578 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 980514003579 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 980514003580 metal binding site [ion binding]; metal-binding site 980514003581 active site 980514003582 I-site; other site 980514003583 argininosuccinate synthase; Provisional; Region: PRK13820 980514003584 Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In...; Region: Argininosuccinate_Synthase; cd01999 980514003585 ANP binding site [chemical binding]; other site 980514003586 Substrate Binding Site II [chemical binding]; other site 980514003587 Substrate Binding Site I [chemical binding]; other site 980514003588 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 980514003589 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 980514003590 active site 980514003591 FMN binding site [chemical binding]; other site 980514003592 2,4-decadienoyl-CoA binding site; other site 980514003593 catalytic residue [active] 980514003594 4Fe-4S cluster binding site [ion binding]; other site 980514003595 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 980514003596 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 980514003597 Zn-dependent protease with chaperone function [Posttranslational modification, protein turnover, chaperones]; Region: HtpX; COG0501 980514003598 Bacterial protein of unknown function (DUF898); Region: DUF898; pfam05987 980514003599 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 980514003600 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 980514003601 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 980514003602 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 980514003603 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 980514003604 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 980514003605 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 980514003606 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 980514003607 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 980514003608 RHS Repeat; Region: RHS_repeat; pfam05593 980514003609 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 980514003610 RHS Repeat; Region: RHS_repeat; pfam05593 980514003611 RHS Repeat; Region: RHS_repeat; pfam05593 980514003612 RHS Repeat; Region: RHS_repeat; pfam05593 980514003613 RHS Repeat; Region: RHS_repeat; cl11982 980514003614 RHS protein; Region: RHS; pfam03527 980514003615 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 980514003616 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 980514003617 Sel1-like repeats; Region: SEL1; smart00671 980514003618 Sel1-like repeats; Region: SEL1; smart00671 980514003619 Sel1-like repeats; Region: SEL1; smart00671 980514003620 Sel1-like repeats; Region: SEL1; smart00671 980514003621 Sel1-like repeats; Region: SEL1; smart00671 980514003622 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 980514003623 Sel1-like repeats; Region: SEL1; smart00671 980514003624 Sel1-like repeats; Region: SEL1; smart00671 980514003625 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 980514003626 Sel1 repeat; Region: Sel1; cl02723 980514003627 Sel1-like repeats; Region: SEL1; smart00671 980514003628 Sel1-like repeats; Region: SEL1; smart00671 980514003629 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 980514003630 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 980514003631 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 980514003632 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 980514003633 Transcriptional regulators [Transcription]; Region: FadR; COG2186 980514003634 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 980514003635 DNA-binding site [nucleotide binding]; DNA binding site 980514003636 FCD domain; Region: FCD; pfam07729 980514003637 SnoaL-like domain; Region: SnoaL_2; pfam12680 980514003638 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 980514003639 gamma-aminobutyraldehyde dehydrogenase; Provisional; Region: PRK13473 980514003640 Escherichia coli NAD+-dependent gamma-aminobutyraldehyde dehydrogenase YdcW-like; Region: ALDH_ABALDH-YdcW; cd07092 980514003641 tetrameric interface [polypeptide binding]; other site 980514003642 NAD binding site [chemical binding]; other site 980514003643 catalytic residues [active] 980514003644 substrate binding site [chemical binding]; other site 980514003645 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 980514003646 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 980514003647 AsnC family; Region: AsnC_trans_reg; pfam01037 980514003648 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 980514003649 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 980514003650 non-specific DNA binding site [nucleotide binding]; other site 980514003651 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 980514003652 salt bridge; other site 980514003653 sequence-specific DNA binding site [nucleotide binding]; other site 980514003654 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 980514003655 Catalytic site [active] 980514003656 Protein of unknown function (DUF1376); Region: DUF1376; cl01531 980514003657 Conserved phage C-terminus (Phg_2220_C); Region: Phg_2220_C; cl09752 980514003658 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 980514003659 replicative DNA helicase; Region: DnaB; TIGR00665 980514003660 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 980514003661 Walker A motif; other site 980514003662 ATP binding site [chemical binding]; other site 980514003663 Walker B motif; other site 980514003664 DNA binding loops [nucleotide binding] 980514003665 RIO kinase family, catalytic domain. The RIO kinase catalytic domain family is part of a larger superfamily, that includes the catalytic domains of other kinases such as the typical serine/threonine/tyrosine protein kinases (PKs), aminoglycoside...; Region: RIO; cl17248 980514003666 Phage antitermination protein Q; Region: Phage_antitermQ; pfam06530 980514003667 Phage terminase-like protein, large subunit [General function prediction only]; Region: COG4626 980514003668 Terminase small subunit; Region: Terminase_2; cl01513 980514003669 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 980514003670 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 980514003671 catalytic residue [active] 980514003672 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 980514003673 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 980514003674 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 980514003675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 980514003676 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 980514003677 Integrase core domain; Region: rve; pfam00665 980514003678 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 980514003679 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 980514003680 classical (c) SDRs; Region: SDR_c; cd05233 980514003681 short chain dehydrogenase; Provisional; Region: PRK05650 980514003682 NAD(P) binding site [chemical binding]; other site 980514003683 active site 980514003684 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 980514003685 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 980514003686 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 980514003687 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 980514003688 Pirin-related protein [General function prediction only]; Region: COG1741 980514003689 Pirin; Region: Pirin; pfam02678 980514003690 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 980514003691 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 980514003692 classical (c) SDRs; Region: SDR_c; cd05233 980514003693 short chain dehydrogenase; Provisional; Region: PRK05650 980514003694 NAD(P) binding site [chemical binding]; other site 980514003695 active site 980514003696 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 980514003697 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 980514003698 Xanthine/uracil/vitamin C permease [Nucleotide transport and metabolism]; Region: COG2252 980514003699 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 980514003700 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 980514003701 active site 980514003702 purine riboside binding site [chemical binding]; other site 980514003703 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 980514003704 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 980514003705 RNA/DNA hybrid binding site [nucleotide binding]; other site 980514003706 active site 980514003707 carbon storage regulator; Provisional; Region: PRK01712 980514003708 aspartate kinase; Reviewed; Region: PRK06635 980514003709 AAK_AKii-LysC-BS: Amino Acid Kinase Superfamily (AAK), AKii; this CD includes the N-terminal catalytic aspartokinase (AK) domain of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis 168, and the lysine plus threonine-sensitive...; Region: AAK_AKii-LysC-BS; cd04261 980514003710 putative nucleotide binding site [chemical binding]; other site 980514003711 putative catalytic residues [active] 980514003712 putative Mg ion binding site [ion binding]; other site 980514003713 putative aspartate binding site [chemical binding]; other site 980514003714 ACT domains of the lysine-sensitive aspartokinase isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related proteins; Region: ACT_AKii-LysC-BS-like_1; cd04913 980514003715 putative allosteric regulatory site; other site 980514003716 ACT domains of the lysine-sensitive, aspartokinase (AK) isoenzyme AKII of Bacillus subtilis (BS) strain 168 and related domains; Region: ACT_AKii-LysC-BS-like_2; cd04936 980514003717 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 980514003718 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 980514003719 motif 1; other site 980514003720 active site 980514003721 motif 2; other site 980514003722 motif 3; other site 980514003723 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 980514003724 DHHA1 domain; Region: DHHA1; pfam02272 980514003725 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 980514003726 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 980514003727 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 980514003728 ATP phosphoribosyltransferase regulatory subunit; Provisional; Region: PRK12421 980514003729 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 980514003730 dimer interface [polypeptide binding]; other site 980514003731 motif 1; other site 980514003732 active site 980514003733 motif 2; other site 980514003734 motif 3; other site 980514003735 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 980514003736 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 980514003737 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 980514003738 Peptidase family M48; Region: Peptidase_M48; pfam01435 980514003739 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 980514003740 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 980514003741 active site 980514003742 catalytic tetrad [active] 980514003743 DNA-binding transcriptional dual regulator Crp; Provisional; Region: PRK11753 980514003744 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 980514003745 ligand binding site [chemical binding]; other site 980514003746 flexible hinge region; other site 980514003747 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 980514003748 putative switch regulator; other site 980514003749 non-specific DNA interactions [nucleotide binding]; other site 980514003750 DNA binding site [nucleotide binding] 980514003751 sequence specific DNA binding site [nucleotide binding]; other site 980514003752 putative cAMP binding site [chemical binding]; other site 980514003753 OsmC-like protein; Region: OsmC; cl00767 980514003754 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 980514003755 Coenzyme A binding pocket [chemical binding]; other site 980514003756 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 980514003757 Peptidase family M23; Region: Peptidase_M23; pfam01551 980514003758 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 980514003759 Clp amino terminal domain; Region: Clp_N; pfam02861 980514003760 Clp amino terminal domain; Region: Clp_N; pfam02861 980514003761 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 980514003762 Walker A motif; other site 980514003763 ATP binding site [chemical binding]; other site 980514003764 Walker B motif; other site 980514003765 arginine finger; other site 980514003766 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 980514003767 Walker A motif; other site 980514003768 ATP binding site [chemical binding]; other site 980514003769 Walker B motif; other site 980514003770 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 980514003771 Competence-damaged protein; Region: CinA; pfam02464 980514003772 23S rRNA m(2)G2445 methyltransferase; Provisional; Region: rlmL; PRK11783 980514003773 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 980514003774 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 980514003775 DNA methylase; Region: N6_N4_Mtase; cl17433 980514003776 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 980514003777 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 980514003778 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 980514003779 dihydroorotase; Validated; Region: pyrC; PRK09357 980514003780 Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C; Region: DHOase_IIa; cd01317 980514003781 active site 980514003782 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 980514003783 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 980514003784 ligand binding site [chemical binding]; other site 980514003785 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 980514003786 Domain of unknown function (DUF2520); Region: DUF2520; pfam10728 980514003787 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 980514003788 GST_N family, unknown subfamily 2; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_2; cd03047 980514003789 putative C-terminal domain interface [polypeptide binding]; other site 980514003790 putative GSH binding site (G-site) [chemical binding]; other site 980514003791 putative dimer interface [polypeptide binding]; other site 980514003792 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 980514003793 putative N-terminal domain interface [polypeptide binding]; other site 980514003794 putative dimer interface [polypeptide binding]; other site 980514003795 putative substrate binding pocket (H-site) [chemical binding]; other site 980514003796 tRNA (guanine-N(7)-)-methyltransferase; Reviewed; Region: trmB; PRK00121 980514003797 Predicted extracellular nuclease [General function prediction only]; Region: COG2374 980514003798 YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate...; Region: YhcR_OBF_like; cd04486 980514003799 generic binding surface II; other site 980514003800 generic binding surface I; other site 980514003801 Mycoplasma pulmonis MnuA nuclease-like; Region: MnuA_DNase1-like; cd10283 980514003802 putative active site [active] 980514003803 putative catalytic site [active] 980514003804 putative Mg binding site IVb [ion binding]; other site 980514003805 putative phosphate binding site [ion binding]; other site 980514003806 putative DNA binding site [nucleotide binding]; other site 980514003807 putative Mg binding site IVa [ion binding]; other site 980514003808 glutathionine S-transferase; Provisional; Region: PRK10542 980514003809 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 980514003810 C-terminal domain interface [polypeptide binding]; other site 980514003811 GSH binding site (G-site) [chemical binding]; other site 980514003812 dimer interface [polypeptide binding]; other site 980514003813 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 980514003814 dimer interface [polypeptide binding]; other site 980514003815 N-terminal domain interface [polypeptide binding]; other site 980514003816 substrate binding pocket (H-site) [chemical binding]; other site 980514003817 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 980514003818 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 980514003819 catalytic residue [active] 980514003820 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 980514003821 catalytic residues [active] 980514003822 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 980514003823 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 980514003824 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 980514003825 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 980514003826 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 980514003827 S-adenosylmethionine binding site [chemical binding]; other site 980514003828 KTSC domain; Region: KTSC; pfam13619 980514003829 peroxiredoxin; Region: AhpC; TIGR03137 980514003830 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 980514003831 dimer interface [polypeptide binding]; other site 980514003832 decamer (pentamer of dimers) interface [polypeptide binding]; other site 980514003833 catalytic triad [active] 980514003834 peroxidatic and resolving cysteines [active] 980514003835 ATP-dependent helicase HrpA; Region: DEAH_box_HrpA; TIGR01967 980514003836 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 980514003837 ATP binding site [chemical binding]; other site 980514003838 putative Mg++ binding site [ion binding]; other site 980514003839 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 980514003840 nucleotide binding region [chemical binding]; other site 980514003841 ATP-binding site [chemical binding]; other site 980514003842 Helicase associated domain (HA2); Region: HA2; pfam04408 980514003843 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 980514003844 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 980514003845 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK07515 980514003846 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 980514003847 dimer interface [polypeptide binding]; other site 980514003848 active site 980514003849 CoA binding pocket [chemical binding]; other site 980514003850 outer membrane porin, OprD family; Region: OprD; pfam03573 980514003851 benzoate transport; Region: 2A0115; TIGR00895 980514003852 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 980514003853 putative substrate translocation pore; other site 980514003854 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 980514003855 putative substrate translocation pore; other site 980514003856 benzoate transporter; Region: benE; TIGR00843 980514003857 Benzoate membrane transport protein; Region: BenE; pfam03594 980514003858 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase; Provisional; Region: benD; PRK12823 980514003859 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase (DHB DH)-like, classical (c) SDR; Region: DHB_DH-like_SDR_c; cd08937 980514003860 putative NAD(P) binding site [chemical binding]; other site 980514003861 active site 980514003862 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 980514003863 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 980514003864 catalytic loop [active] 980514003865 iron binding site [ion binding]; other site 980514003866 Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal...; Region: BenDO_FAD_NAD; cd06209 980514003867 FAD binding pocket [chemical binding]; other site 980514003868 FAD binding motif [chemical binding]; other site 980514003869 phosphate binding motif [ion binding]; other site 980514003870 beta-alpha-beta structure motif; other site 980514003871 NAD binding pocket [chemical binding]; other site 980514003872 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 980514003873 inter-subunit interface; other site 980514003874 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 980514003875 Rieske non-heme iron oxygenase (RO) family, 2-Halobenzoate 1,2-dioxygenase (HBDO) subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; ROs comprise a large class of aromatic ring-hydroxylating dioxygenases that enable microorganisms to...; Region: Rieske_RO_Alpha_HBDO; cd03542 980514003876 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 980514003877 putative alpha subunit interface [polypeptide binding]; other site 980514003878 putative active site [active] 980514003879 putative substrate binding site [chemical binding]; other site 980514003880 Fe binding site [ion binding]; other site 980514003881 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 980514003882 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514003883 The C-terminal substrate binding domain of LysR-type transcriptional regulators involved in benzoate catabolism; contains the type 2 periplasmic binding fold; Region: PBP2_BenM_CatM_CatR; cd08445 980514003884 dimerizarion interface [polypeptide binding]; other site 980514003885 CrgA pocket; other site 980514003886 substrate binding pocket [chemical binding]; other site 980514003887 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 980514003888 metal-binding site [ion binding] 980514003889 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 980514003890 metal-binding site [ion binding] 980514003891 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 980514003892 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 980514003893 metal-binding site [ion binding] 980514003894 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 980514003895 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 980514003896 motif II; other site 980514003897 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 980514003898 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 980514003899 DNA binding residues [nucleotide binding] 980514003900 dimer interface [polypeptide binding]; other site 980514003901 copper binding site [ion binding]; other site 980514003902 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; pfam04828 980514003903 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 980514003904 dimerization interface [polypeptide binding]; other site 980514003905 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 980514003906 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 980514003907 ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a...; Region: ExoVII_LU_OBF; cd04489 980514003908 generic binding surface II; other site 980514003909 generic binding surface I; other site 980514003910 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 980514003911 Predicted transcriptional regulator [Transcription]; Region: COG2932 980514003912 non-specific DNA binding site [nucleotide binding]; other site 980514003913 salt bridge; other site 980514003914 sequence-specific DNA binding site [nucleotide binding]; other site 980514003915 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 980514003916 Catalytic site [active] 980514003917 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 980514003918 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 980514003919 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 980514003920 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 980514003921 DNA-binding site [nucleotide binding]; DNA binding site 980514003922 RNA-binding motif; other site 980514003923 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 980514003924 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 980514003925 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 980514003926 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 980514003927 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 980514003928 putative substrate translocation pore; other site 980514003929 Predicted transcriptional regulators [Transcription]; Region: COG1733 980514003930 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 980514003931 Domain of unknown function (DUF4142); Region: DUF4142; pfam13628 980514003932 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 980514003933 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 980514003934 active site 980514003935 HIGH motif; other site 980514003936 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 980514003937 KMSKS motif; other site 980514003938 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 980514003939 tRNA binding surface [nucleotide binding]; other site 980514003940 anticodon binding site; other site 980514003941 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 980514003942 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 980514003943 putative active site [active] 980514003944 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 980514003945 HAD-superfamily hydrolase, subfamily IIIA; Region: HAD-SF-IIIA; TIGR01662 980514003946 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 980514003947 active site 980514003948 motif I; other site 980514003949 motif II; other site 980514003950 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 980514003951 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 980514003952 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 980514003953 OstA-like protein; Region: OstA; pfam03968 980514003954 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 980514003955 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 980514003956 Walker A/P-loop; other site 980514003957 ATP binding site [chemical binding]; other site 980514003958 Q-loop/lid; other site 980514003959 ABC transporter signature motif; other site 980514003960 Walker B; other site 980514003961 D-loop; other site 980514003962 H-loop/switch region; other site 980514003963 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 980514003964 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 980514003965 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 980514003966 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 980514003967 Walker A/P-loop; other site 980514003968 ATP binding site [chemical binding]; other site 980514003969 Q-loop/lid; other site 980514003970 ABC transporter signature motif; other site 980514003971 Walker B; other site 980514003972 D-loop; other site 980514003973 H-loop/switch region; other site 980514003974 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 980514003975 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 980514003976 HlyD family secretion protein; Region: HlyD_3; pfam13437 980514003977 Uncharacterized conserved protein [Function unknown]; Region: COG1739 980514003978 Uncharacterized protein family UPF0029; Region: UPF0029; pfam01205 980514003979 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 980514003980 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 980514003981 putative trimer interface [polypeptide binding]; other site 980514003982 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 980514003983 trimer interface [polypeptide binding]; other site 980514003984 active site 980514003985 substrate binding site [chemical binding]; other site 980514003986 putative CoA binding site [chemical binding]; other site 980514003987 CoA binding site [chemical binding]; other site 980514003988 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 980514003989 Ligand Binding Site [chemical binding]; other site 980514003990 Predicted O-methyltransferase [General function prediction only]; Region: COG4122 980514003991 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 980514003992 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 980514003993 Ferredoxin [Energy production and conversion]; Region: COG1146 980514003994 4Fe-4S binding domain; Region: Fer4; pfam00037 980514003995 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 980514003996 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 980514003997 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 980514003998 Coenzyme A binding pocket [chemical binding]; other site 980514003999 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 980514004000 MutS domain I; Region: MutS_I; pfam01624 980514004001 MutS domain II; Region: MutS_II; pfam05188 980514004002 MutS domain III; Region: MutS_III; pfam05192 980514004003 MutS domain V; Region: MutS_V; pfam00488 980514004004 Walker A/P-loop; other site 980514004005 ATP binding site [chemical binding]; other site 980514004006 Q-loop/lid; other site 980514004007 ABC transporter signature motif; other site 980514004008 Walker B; other site 980514004009 D-loop; other site 980514004010 H-loop/switch region; other site 980514004011 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 980514004012 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 980514004013 AsnC family; Region: AsnC_trans_reg; pfam01037 980514004014 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 980514004015 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 980514004016 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 980514004017 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 980514004018 putative acyl-acceptor binding pocket; other site 980514004019 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 980514004020 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 980514004021 benzoate transport; Region: 2A0115; TIGR00895 980514004022 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 980514004023 putative substrate translocation pore; other site 980514004024 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 980514004025 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 980514004026 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 980514004027 Helix-Turn-Helix DNA binding domain of the transcription regulators NolA and AlbR; Region: HTH_NolA-AlbR; cd04788 980514004028 DNA binding residues [nucleotide binding] 980514004029 putative dimer interface [polypeptide binding]; other site 980514004030 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 980514004031 TipAS antibiotic-recognition domain; Region: TipAS; pfam07739 980514004032 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 980514004033 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 980514004034 Acetyltransferase (GNAT) domain; Region: Acetyltransf_7; pfam13508 980514004035 Coenzyme A binding pocket [chemical binding]; other site 980514004036 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 980514004037 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 980514004038 motif II; other site 980514004039 Beta-lactamase enzyme family; Region: Beta-lactamase2; pfam13354 980514004040 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 980514004041 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 980514004042 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 980514004043 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 980514004044 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 980514004045 RHS Repeat; Region: RHS_repeat; pfam05593 980514004046 Rhs family protein [Cell envelope biogenesis, outer membrane]; Region: RhsA; COG3209 980514004047 RHS Repeat; Region: RHS_repeat; pfam05593 980514004048 RHS Repeat; Region: RHS_repeat; pfam05593 980514004049 RHS Repeat; Region: RHS_repeat; pfam05593 980514004050 RHS Repeat; Region: RHS_repeat; pfam05593 980514004051 RHS Repeat; Region: RHS_repeat; pfam05593 980514004052 RHS protein; Region: RHS; pfam03527 980514004053 RHS repeat-associated core domain; Region: Rhs_assc_core; TIGR03696 980514004054 transcriptional regulator, ArgP family; Region: argP; TIGR03298 980514004055 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514004056 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 980514004057 dimerization interface [polypeptide binding]; other site 980514004058 Mn2+ and Fe2+ transporters of the NRAMP family [Inorganic ion transport and metabolism]; Region: MntH; COG1914 980514004059 LamB/YcsF family of lactam utilization protein; Region: LamB_YcsF_like; cd10787 980514004060 putative active site [active] 980514004061 hypothetical protein; Provisional; Region: PRK05463 980514004062 Allophanate hydrolase subunit 1; Region: AHS1; pfam02682 980514004063 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; COG2049 980514004064 Allophanate hydrolase subunit 2; Region: AHS2; pfam02626 980514004065 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 980514004066 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 980514004067 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 980514004068 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 980514004069 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 980514004070 carboxyltransferase (CT) interaction site; other site 980514004071 biotinylation site [posttranslational modification]; other site 980514004072 Chloride channel protein EriC [Inorganic ion transport and metabolism]; Region: EriC; COG0038 980514004073 ClC sycA-like chloride channel proteins. This ClC family presents in bacteria, where it facilitates acid resistance in acidic soil. Mutation of this gene (sycA) in Rhizobium tropici CIAT899 causes serious deficiencies in nodule development, nodulation...; Region: ClC_sycA_like; cd03682 980514004074 putative Cl- selectivity filter; other site 980514004075 putative pore gating glutamate residue; other site 980514004076 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 980514004077 Sel1-like repeats; Region: SEL1; smart00671 980514004078 Sel1-like repeats; Region: SEL1; smart00671 980514004079 Sel1-like repeats; Region: SEL1; smart00671 980514004080 Sel1-like repeats; Region: SEL1; smart00671 980514004081 Sel1-like repeats; Region: SEL1; smart00671 980514004082 Sel1-like repeats; Region: SEL1; smart00671 980514004083 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 980514004084 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 980514004085 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 980514004086 putative hydrophobic ligand binding site [chemical binding]; other site 980514004087 protein interface [polypeptide binding]; other site 980514004088 gate; other site 980514004089 Glutathione-dependent formaldehyde dehydrogenase related proteins, child 1; Region: FDH_like_1; cd08283 980514004090 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 980514004091 NAD binding site [chemical binding]; other site 980514004092 catalytic Zn binding site [ion binding]; other site 980514004093 structural Zn binding site [ion binding]; other site 980514004094 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 980514004095 urea carboxylase-associated protein 2; Region: urea_degr_2; TIGR03425 980514004096 urea carboxylase-associated protein 1; Region: urea_degr_1; TIGR03424 980514004097 Domain of unknown function (DUF1989); Region: DUF1989; pfam09347 980514004098 urea carboxylase; Region: urea_carbox; TIGR02712 980514004099 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 980514004100 ATP-grasp domain; Region: ATP-grasp_4; cl17255 980514004101 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 980514004102 Allophanate hydrolase subunit 2; Region: AHS2; smart00797 980514004103 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]; Region: DUR1; cl00896 980514004104 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 980514004105 carboxyltransferase (CT) interaction site; other site 980514004106 biotinylation site [posttranslational modification]; other site 980514004107 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 980514004108 Predicted transcriptional regulators [Transcription]; Region: COG1733 980514004109 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 980514004110 nickel responsive regulator; Provisional; Region: PRK04460 980514004111 NikR C terminal nickel binding domain; Region: NikR_C; pfam08753 980514004112 allophanate hydrolase; Provisional; Region: PRK08186 980514004113 Amidase; Region: Amidase; cl11426 980514004114 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 980514004115 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 980514004116 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 980514004117 Walker A/P-loop; other site 980514004118 ATP binding site [chemical binding]; other site 980514004119 Q-loop/lid; other site 980514004120 ABC transporter signature motif; other site 980514004121 Walker B; other site 980514004122 D-loop; other site 980514004123 H-loop/switch region; other site 980514004124 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 980514004125 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 980514004126 dimer interface [polypeptide binding]; other site 980514004127 conserved gate region; other site 980514004128 putative PBP binding loops; other site 980514004129 ABC-ATPase subunit interface; other site 980514004130 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4460 980514004131 Protein of unknown function (DUF770); Region: DUF770; pfam05591 980514004132 Predicted component of the type VI protein secretion system [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3517; cl05484 980514004133 Protein of unknown function (DUF877); Region: DUF877; pfam05943 980514004134 Protein of unknown function (DUF796); Region: DUF796; pfam05638 980514004135 type VI secretion system lysozyme-like protein; Region: VI_zyme; TIGR03357 980514004136 Type VI protein secretion system component VasA [Intracellular trafficking, secretion, and vesicular transport]; Region: COG3519 980514004137 Bacterial protein of unknown function (DUF879); Region: DUF879; cl15462 980514004138 Protein of unknown function (DUF1305); Region: DUF1305; pfam06996 980514004139 Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]; Region: IcmF; COG3523 980514004140 Intracellular multiplication and human macrophage-killing; Region: IcmF-related; pfam06761 980514004141 Protein of unknown function (DUF1215); Region: DUF1215; pfam06744 980514004142 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 980514004143 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 980514004144 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 980514004145 ligand binding site [chemical binding]; other site 980514004146 PAAR motif; Region: PAAR_motif; pfam05488 980514004147 type VI secretion ATPase, ClpV1 family; Region: VI_ClpV1; TIGR03345 980514004148 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 980514004149 Walker A motif; other site 980514004150 ATP binding site [chemical binding]; other site 980514004151 Walker B motif; other site 980514004152 arginine finger; other site 980514004153 JNK_SAPK-associated protein-1; Region: Jnk-SapK_ap_N; pfam09744 980514004154 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 980514004155 Walker A motif; other site 980514004156 ATP binding site [chemical binding]; other site 980514004157 Walker B motif; other site 980514004158 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 980514004159 type VI secretion-associated protein, ImpA family; Region: VI_chp_8; TIGR03363 980514004160 ImpA-related N-terminal; Region: ImpA-rel_N; pfam06812 980514004161 type VI secretion protein, VC_A0114 family; Region: VI_chp_4; TIGR03353 980514004162 Bacterial protein of unknown function (DUF876); Region: DUF876; pfam05936 980514004163 type IV / VI secretion system protein, DotU family; Region: IV_VI_DotU; TIGR03349 980514004164 D-alanyl-D-alanine carboxypeptidase; Region: VanY; pfam02557 980514004165 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_M15_4; pfam13539 980514004166 Transcriptional regulator [Transcription]; Region: LysR; COG0583 980514004167 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514004168 LysR substrate binding domain; Region: LysR_substrate; pfam03466 980514004169 dimerization interface [polypeptide binding]; other site 980514004170 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 980514004171 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 980514004172 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 980514004173 Ankyrin repeats (many copies); Region: Ank_4; pfam13637 980514004174 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 980514004175 nucleoside/Zn binding site; other site 980514004176 dimer interface [polypeptide binding]; other site 980514004177 catalytic motif [active] 980514004178 putative cyanate transporter; Provisional; Region: cynX; PRK09705 980514004179 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 980514004180 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3214 980514004181 Protein of unknown function (DUF1006); Region: DUF1006; pfam06224 980514004182 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 980514004183 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 980514004184 Coenzyme A binding pocket [chemical binding]; other site 980514004185 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1636 980514004186 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 980514004187 Helix-Turn-Helix DNA binding domain of the SoxR transcription regulator; Region: HTH_SoxR; cd01110 980514004188 DNA binding residues [nucleotide binding] 980514004189 dimer interface [polypeptide binding]; other site 980514004190 [2Fe-2S] cluster binding site [ion binding]; other site 980514004191 Putative hemolysin [General function prediction only]; Region: Hlx; COG3042 980514004192 Prokaryotic membrane lipoprotein lipid attachment site; Region: LPAM_1; pfam08139 980514004193 Domain of unknown function (DUF333); Region: DUF333; pfam03891 980514004194 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 980514004195 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 980514004196 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 980514004197 active site 980514004198 inhibitor site; inhibition site 980514004199 dimer interface [polypeptide binding]; other site 980514004200 catalytic residue [active] 980514004201 EamA-like transporter family; Region: EamA; pfam00892 980514004202 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 980514004203 Transcriptional regulators [Transcription]; Region: GntR; COG1802 980514004204 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 980514004205 DNA-binding site [nucleotide binding]; DNA binding site 980514004206 FCD domain; Region: FCD; pfam07729 980514004207 hydroxyproline-2-epimerase; Provisional; Region: PRK13970 980514004208 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 980514004209 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 980514004210 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 980514004211 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 980514004212 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 980514004213 PAS fold; Region: PAS_4; pfam08448 980514004214 Helix-turn-helix domain; Region: HTH_18; pfam12833 980514004215 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 980514004216 metabolite-proton symporter; Region: 2A0106; TIGR00883 980514004217 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 980514004218 putative substrate translocation pore; other site 980514004219 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 980514004220 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 980514004221 dimer interface [polypeptide binding]; other site 980514004222 NADP binding site [chemical binding]; other site 980514004223 catalytic residues [active] 980514004224 amino acid transporter; Region: 2A0306; TIGR00909 980514004225 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 980514004226 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 980514004227 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 980514004228 bifunctional aldehyde dehydrogenase/enoyl-CoA hydratase; Provisional; Region: PRK11563 980514004229 N-terminal domain of the monoamine oxidase C dehydratase; Region: ALDH_MaoC-N; cd07128 980514004230 substrate binding site [chemical binding]; other site 980514004231 dimer interface [polypeptide binding]; other site 980514004232 NADP binding site [chemical binding]; other site 980514004233 catalytic residues [active] 980514004234 MaoC_C The C-terminal hot dog fold of the MaoC (monoamine oxidase C) dehydratase regulatory protein. Orthologs of MaoC include PaaZ [Escherichia coli] and PaaN [Pseudomonas putida], which are putative ring-opening enzymes involved in phenylacetic acid...; Region: MaoC_C; cd03452 980514004235 substrate binding site [chemical binding]; other site 980514004236 phenylacetate-CoA oxygenase subunit PaaA; Provisional; Region: paaA; PRK13778 980514004237 phenylacetate-CoA oxygenase, PaaG subunit; Region: PA_CoA_Oxy1; TIGR02156 980514004238 phenylacetate-CoA oxygenase subunit PaaB; Provisional; Region: paaB; PRK13781 980514004239 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; pfam05138 980514004240 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 980514004241 phenylacetate-CoA oxygenase, PaaJ subunit; Region: PA_CoA_Oxy4; TIGR02159 980514004242 phenylacetate-CoA oxygenase/reductase, PaaK subunit; Region: PA_CoA_Oxy5; TIGR02160 980514004243 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 980514004244 FAD binding pocket [chemical binding]; other site 980514004245 FAD binding motif [chemical binding]; other site 980514004246 phosphate binding motif [ion binding]; other site 980514004247 beta-alpha-beta structure motif; other site 980514004248 NAD(p) ribose binding residues [chemical binding]; other site 980514004249 NAD binding pocket [chemical binding]; other site 980514004250 NAD(P)-pyrophosphate-nicotinamide binding residues [chemical binding]; other site 980514004251 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 980514004252 catalytic loop [active] 980514004253 iron binding site [ion binding]; other site 980514004254 enoyl-CoA hydratase-isomerase; Provisional; Region: PRK09674 980514004255 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 980514004256 substrate binding site [chemical binding]; other site 980514004257 oxyanion hole (OAH) forming residues; other site 980514004258 trimer interface [polypeptide binding]; other site 980514004259 enoyl-CoA hydratase; Provisional; Region: PRK08140 980514004260 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 980514004261 substrate binding site [chemical binding]; other site 980514004262 oxyanion hole (OAH) forming residues; other site 980514004263 trimer interface [polypeptide binding]; other site 980514004264 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 980514004265 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 980514004266 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 980514004267 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 980514004268 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 980514004269 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 980514004270 dimer interface [polypeptide binding]; other site 980514004271 active site 980514004272 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 980514004273 phenylacetate-CoA ligase; Region: PA_CoA_ligase; TIGR02155 980514004274 acyl-activating enzyme (AAE) consensus motif; other site 980514004275 AMP binding site [chemical binding]; other site 980514004276 active site 980514004277 CoA binding site [chemical binding]; other site 980514004278 PaaX-like protein; Region: PaaX; pfam07848 980514004279 phenylacetic acid degradation operon negative regulatory protein PaaX; Region: PaaX_trns_reg; TIGR02277 980514004280 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 980514004281 phenylacetic acid degradation protein PaaY; Region: PaaY; TIGR02287 980514004282 paaY-like: This group is composed by uncharacterized proteins with similarity to the protein product of the E. coli paaY gene, which is part of the paa gene cluster responsible for phenylacetic acid degradation. Proteins in this group are expected to...; Region: LbH_paaY_like; cd04745 980514004283 putative trimer interface [polypeptide binding]; other site 980514004284 putative metal binding site [ion binding]; other site 980514004285 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 980514004286 CoenzymeA binding site [chemical binding]; other site 980514004287 subunit interaction site [polypeptide binding]; other site 980514004288 PHB binding site; other site 980514004289 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 980514004290 RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin. RT transcribes DNA using RNA as template. Proteins in this subfamily are found in bacterial and mitochondrial group II introns. Their most probable ancestor was a retrotransposable...; Region: RT_G2_intron; cd01651 980514004291 putative active site [active] 980514004292 putative NTP binding site [chemical binding]; other site 980514004293 putative nucleic acid binding site [nucleotide binding]; other site 980514004294 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 980514004295 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 980514004296 Catalase-like heme-binding proteins similar to the uncharacterized srpA; Region: srpA_like; cd08153 980514004297 putative heme binding pocket [chemical binding]; other site 980514004298 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 980514004299 Uncharacterized conserved protein [Function unknown]; Region: COG5470 980514004300 Transcriptional regulators [Transcription]; Region: GntR; COG1802 980514004301 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 980514004302 DNA-binding site [nucleotide binding]; DNA binding site 980514004303 FCD domain; Region: FCD; cl11656 980514004304 Amino acid synthesis; Region: AA_synth; pfam06684 980514004305 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 980514004306 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 980514004307 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 980514004308 Flavin-utilizing monoxygenases; Region: Flavin_utilizing_monoxygenases; cl07892 980514004309 Luciferase-like monooxygenase; Region: Bac_luciferase; pfam00296 980514004310 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 980514004311 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 980514004312 NAD(P) binding site [chemical binding]; other site 980514004313 catalytic residues [active] 980514004314 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 980514004315 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 980514004316 succinic semialdehyde dehydrogenase; Region: PLN02278 980514004317 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 980514004318 tetramerization interface [polypeptide binding]; other site 980514004319 NAD(P) binding site [chemical binding]; other site 980514004320 catalytic residues [active] 980514004321 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 980514004322 Transcriptional regulator [Transcription]; Region: LysR; COG0583 980514004323 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514004324 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_6; cd08475 980514004325 putative effector binding pocket; other site 980514004326 putative dimerization interface [polypeptide binding]; other site 980514004327 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 980514004328 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 980514004329 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 980514004330 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 980514004331 Bacterial transcriptional regulator; Region: IclR; pfam01614 980514004332 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 980514004333 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 980514004334 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 980514004335 transcriptional regulator protein; Region: phnR; TIGR03337 980514004336 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 980514004337 DNA-binding site [nucleotide binding]; DNA binding site 980514004338 UTRA domain; Region: UTRA; pfam07702 980514004339 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 980514004340 ABC-type thiamine transport system, periplasmic component [Coenzyme metabolism]; Region: TbpA; COG4143 980514004341 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 980514004342 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 980514004343 Walker A/P-loop; other site 980514004344 ATP binding site [chemical binding]; other site 980514004345 Q-loop/lid; other site 980514004346 ABC transporter signature motif; other site 980514004347 Walker B; other site 980514004348 D-loop; other site 980514004349 H-loop/switch region; other site 980514004350 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 980514004351 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 980514004352 dimer interface [polypeptide binding]; other site 980514004353 conserved gate region; other site 980514004354 putative PBP binding loops; other site 980514004355 ABC-ATPase subunit interface; other site 980514004356 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 980514004357 dimer interface [polypeptide binding]; other site 980514004358 conserved gate region; other site 980514004359 putative PBP binding loops; other site 980514004360 ABC-ATPase subunit interface; other site 980514004361 FAD dependent oxidoreductase TIGR03364; Region: HpnW_proposed 980514004362 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 980514004363 2-aminoethylphosphonate--pyruvate transaminase; Provisional; Region: PRK13479 980514004364 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 980514004365 catalytic residue [active] 980514004366 phosphonoacetaldehyde hydrolase; Provisional; Region: PRK13478 980514004367 benzoate transport; Region: 2A0115; TIGR00895 980514004368 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 980514004369 putative substrate translocation pore; other site 980514004370 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 980514004371 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 980514004372 active site 980514004373 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 980514004374 CoA-transferase family III; Region: CoA_transf_3; pfam02515 980514004375 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 980514004376 Transcriptional regulator [Transcription]; Region: IclR; COG1414 980514004377 Bacterial transcriptional regulator; Region: IclR; pfam01614 980514004378 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 980514004379 enoyl-CoA hydratase; Provisional; Region: PRK06688 980514004380 substrate binding site [chemical binding]; other site 980514004381 oxyanion hole (OAH) forming residues; other site 980514004382 trimer interface [polypeptide binding]; other site 980514004383 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 980514004384 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 980514004385 FMN binding site [chemical binding]; other site 980514004386 substrate binding site [chemical binding]; other site 980514004387 putative catalytic residue [active] 980514004388 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 980514004389 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 980514004390 putative substrate translocation pore; other site 980514004391 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 980514004392 Transcriptional regulator [Transcription]; Region: IclR; COG1414 980514004393 Bacterial transcriptional regulator; Region: IclR; pfam01614 980514004394 acetyl-CoA acetyltransferase; Provisional; Region: PRK08131 980514004395 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 980514004396 dimer interface [polypeptide binding]; other site 980514004397 active site 980514004398 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 980514004399 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 980514004400 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 980514004401 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 980514004402 3-ketoacyl-(acyl-carrier-protein) reductase; Reviewed; Region: PRK12826 980514004403 classical (c) SDRs; Region: SDR_c; cd05233 980514004404 NAD(P) binding site [chemical binding]; other site 980514004405 active site 980514004406 enoyl-CoA hydratase; Provisional; Region: PRK08138 980514004407 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 980514004408 substrate binding site [chemical binding]; other site 980514004409 oxyanion hole (OAH) forming residues; other site 980514004410 trimer interface [polypeptide binding]; other site 980514004411 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 980514004412 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 980514004413 active site 980514004414 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 980514004415 benzoate transport; Region: 2A0115; TIGR00895 980514004416 putative substrate translocation pore; other site 980514004417 3-oxoacid CoA-transferase, A subunit; Region: pcaI_scoA_fam; TIGR02429 980514004418 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 980514004419 Maltoporin periplasmic N-terminal extension; Region: Sugarporin_N; pfam11471 980514004420 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 980514004421 Major Facilitator Superfamily; Region: MFS_1; pfam07690 980514004422 putative substrate translocation pore; other site 980514004423 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 980514004424 CoenzymeA binding site [chemical binding]; other site 980514004425 subunit interaction site [polypeptide binding]; other site 980514004426 PHB binding site; other site 980514004427 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 980514004428 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 980514004429 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 980514004430 active site 980514004431 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 980514004432 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 980514004433 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 980514004434 Pyrimidine (PYR) binding domain of pyruvate ferredoxin oxidoreductase (PFOR), indolepyruvate ferredoxin oxidoreductase alpha subunit (IOR-alpha), and related proteins; Region: TPP_PYR_PFOR_IOR-alpha_like; cd07034 980514004435 dimer interface [polypeptide binding]; other site 980514004436 PYR/PP interface [polypeptide binding]; other site 980514004437 TPP binding site [chemical binding]; other site 980514004438 substrate binding site [chemical binding]; other site 980514004439 Thiamine pyrophosphate (TPP) enzyme family, TPP-binding module; found in many key metabolic enzymes which use TPP (also known as thiamine diphosphate) as a cofactor. These enzymes include, among others, the E1 components of the pyruvate, the acetoin and...; Region: TPP_enzymes; cl01629 980514004440 TPP-binding site [chemical binding]; other site 980514004441 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 980514004442 Transcriptional regulator [Transcription]; Region: LysR; COG0583 980514004443 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514004444 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 980514004445 putative effector binding pocket; other site 980514004446 dimerization interface [polypeptide binding]; other site 980514004447 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 980514004448 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 980514004449 active site 980514004450 catalytic residues [active] 980514004451 metal binding site [ion binding]; metal-binding site 980514004452 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 980514004453 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 980514004454 ATP-grasp domain; Region: ATP-grasp_4; cl17255 980514004455 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 980514004456 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 980514004457 carboxyltransferase (CT) interaction site; other site 980514004458 biotinylation site [posttranslational modification]; other site 980514004459 enoyl-CoA hydratase; Provisional; Region: PRK05995 980514004460 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 980514004461 substrate binding site [chemical binding]; other site 980514004462 oxyanion hole (OAH) forming residues; other site 980514004463 trimer interface [polypeptide binding]; other site 980514004464 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 980514004465 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 980514004466 isovaleryl-CoA dehydrogenase; Region: PLN02519 980514004467 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 980514004468 substrate binding site [chemical binding]; other site 980514004469 FAD binding site [chemical binding]; other site 980514004470 catalytic base [active] 980514004471 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 980514004472 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 980514004473 AMP-binding domain protein; Validated; Region: PRK08315 980514004474 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 980514004475 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 980514004476 acyl-activating enzyme (AAE) consensus motif; other site 980514004477 putative AMP binding site [chemical binding]; other site 980514004478 putative active site [active] 980514004479 putative CoA binding site [chemical binding]; other site 980514004480 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 980514004481 S-adenosylmethionine binding site [chemical binding]; other site 980514004482 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 980514004483 SGNH_hydrolase subfamily, similar to the putative arylesterase/acylhydrolase from the rumen anaerobe Prevotella bryantii XynE. The P. bryantii XynE gene is located in a xylanase gene cluster. SGNH hydrolases are a diverse family of lipases and esterases; Region: XynE_like; cd01830 980514004484 active site 980514004485 catalytic triad [active] 980514004486 oxyanion hole [active] 980514004487 Transcriptional regulator [Transcription]; Region: LysR; COG0583 980514004488 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514004489 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 980514004490 putative effector binding pocket; other site 980514004491 dimerization interface [polypeptide binding]; other site 980514004492 The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent; Region: Oxidoreductase_nitrogenase; cl02775 980514004493 Competence-damaged protein; Region: CinA; pfam02464 980514004494 hydroperoxidase II; Provisional; Region: katE; PRK11249 980514004495 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 980514004496 tetramer interface [polypeptide binding]; other site 980514004497 heme binding pocket [chemical binding]; other site 980514004498 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 980514004499 domain interactions; other site 980514004500 short chain dehydrogenase; Provisional; Region: PRK06701 980514004501 classical (c) SDR, subgroup 1; Region: SDR_c1; cd05355 980514004502 NAD binding site [chemical binding]; other site 980514004503 metal binding site [ion binding]; metal-binding site 980514004504 active site 980514004505 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 980514004506 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 980514004507 Catalytic site [active] 980514004508 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 980514004509 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 980514004510 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 980514004511 putative DNA binding site [nucleotide binding]; other site 980514004512 putative Zn2+ binding site [ion binding]; other site 980514004513 AsnC family; Region: AsnC_trans_reg; pfam01037 980514004514 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 980514004515 Na binding site [ion binding]; other site 980514004516 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 980514004517 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 980514004518 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 980514004519 dimer interface [polypeptide binding]; other site 980514004520 phosphorylation site [posttranslational modification] 980514004521 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 980514004522 ATP binding site [chemical binding]; other site 980514004523 Mg2+ binding site [ion binding]; other site 980514004524 G-X-G motif; other site 980514004525 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 980514004526 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 980514004527 active site 980514004528 phosphorylation site [posttranslational modification] 980514004529 intermolecular recognition site; other site 980514004530 dimerization interface [polypeptide binding]; other site 980514004531 Response regulator receiver domain; Region: Response_reg; pfam00072 980514004532 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 980514004533 active site 980514004534 phosphorylation site [posttranslational modification] 980514004535 intermolecular recognition site; other site 980514004536 dimerization interface [polypeptide binding]; other site 980514004537 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 980514004538 DNA binding residues [nucleotide binding] 980514004539 dimerization interface [polypeptide binding]; other site 980514004540 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 980514004541 Coenzyme A binding pocket [chemical binding]; other site 980514004542 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 980514004543 dimer interface [polypeptide binding]; other site 980514004544 conserved gate region; other site 980514004545 putative PBP binding loops; other site 980514004546 ABC-ATPase subunit interface; other site 980514004547 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 980514004548 dimer interface [polypeptide binding]; other site 980514004549 conserved gate region; other site 980514004550 putative PBP binding loops; other site 980514004551 ABC-ATPase subunit interface; other site 980514004552 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 980514004553 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 980514004554 Walker A/P-loop; other site 980514004555 ATP binding site [chemical binding]; other site 980514004556 Q-loop/lid; other site 980514004557 ABC transporter signature motif; other site 980514004558 Walker B; other site 980514004559 D-loop; other site 980514004560 H-loop/switch region; other site 980514004561 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 980514004562 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 980514004563 substrate binding pocket [chemical binding]; other site 980514004564 membrane-bound complex binding site; other site 980514004565 hinge residues; other site 980514004566 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 980514004567 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 980514004568 substrate binding pocket [chemical binding]; other site 980514004569 membrane-bound complex binding site; other site 980514004570 hinge residues; other site 980514004571 Transcriptional regulator [Transcription]; Region: LysR; COG0583 980514004572 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514004573 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 980514004574 putative effector binding pocket; other site 980514004575 dimerization interface [polypeptide binding]; other site 980514004576 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 980514004577 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 980514004578 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 980514004579 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 980514004580 catalytic residue [active] 980514004581 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 980514004582 trimer interface [polypeptide binding]; other site 980514004583 active site 980514004584 substrate binding site [chemical binding]; other site 980514004585 CoA binding site [chemical binding]; other site 980514004586 Member of the Rhodanese Homology Domain superfamily, subgroup 1. This CD includes the putative rhodanese-related sulfurtransferases of several uncharacterized proteins; Region: RHOD_1; cd01522 980514004587 active site residue [active] 980514004588 short chain dehydrogenase; Provisional; Region: PRK12937 980514004589 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 980514004590 NADP binding site [chemical binding]; other site 980514004591 homodimer interface [polypeptide binding]; other site 980514004592 active site 980514004593 substrate binding site [chemical binding]; other site 980514004594 Transcriptional regulator [Transcription]; Region: LysR; COG0583 980514004595 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514004596 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 980514004597 putative effector binding pocket; other site 980514004598 putative dimerization interface [polypeptide binding]; other site 980514004599 putative S-transferase; Provisional; Region: PRK11752 980514004600 GST_N family, Ure2p-like subfamily; composed of the Saccharomyces cerevisiae Ure2p and related GSTs. Ure2p is a regulator for nitrogen catabolism in yeast. It represses the expression of several gene products involved in the use of poor nitrogen sources...; Region: GST_N_Ure2p_like; cd03048 980514004601 C-terminal domain interface [polypeptide binding]; other site 980514004602 GSH binding site (G-site) [chemical binding]; other site 980514004603 dimer interface [polypeptide binding]; other site 980514004604 C-terminal, alpha helical domain of Escherichia coli Yghu Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YghU_like; cd10292 980514004605 dimer interface [polypeptide binding]; other site 980514004606 N-terminal domain interface [polypeptide binding]; other site 980514004607 active site 980514004608 glutathione S-transferase; Provisional; Region: PRK15113 980514004609 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 980514004610 C-terminal domain interface [polypeptide binding]; other site 980514004611 GSH binding site (G-site) [chemical binding]; other site 980514004612 dimer interface [polypeptide binding]; other site 980514004613 C-terminal, alpha helical domain of an unknown subfamily 4 of Glutathione S-transferases; Region: GST_C_4; cd03195 980514004614 putative dimer interface [polypeptide binding]; other site 980514004615 N-terminal domain interface [polypeptide binding]; other site 980514004616 putative substrate binding pocket (H-site) [chemical binding]; other site 980514004617 Transcriptional regulator [Transcription]; Region: LysR; COG0583 980514004618 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514004619 The C-terminal substrate binding domain of LysR-like transcriptional regulator CidR, contains the type 2 periplasmic binding fold; Region: PBP2_CidR; cd08438 980514004620 putative dimerization interface [polypeptide binding]; other site 980514004621 LrgA family; Region: LrgA; cl00608 980514004622 Putative effector of murein hydrolase [Cell envelope biogenesis, outer membrane]; Region: LrgB; COG1346 980514004623 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 980514004624 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 980514004625 DNA-binding site [nucleotide binding]; DNA binding site 980514004626 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 980514004627 pyridoxal 5'-phosphate binding site [chemical binding]; other site 980514004628 homodimer interface [polypeptide binding]; other site 980514004629 catalytic residue [active] 980514004630 Transcriptional regulator [Transcription]; Region: PaiB; COG2808 980514004631 Acetyltransferases, including N-acetylases of ribosomal proteins [Translation, ribosomal structure and biogenesis]; Region: RimL; COG1670 980514004632 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 980514004633 Major Facilitator Superfamily; Region: MFS_1; pfam07690 980514004634 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 980514004635 putative substrate translocation pore; other site 980514004636 malonate decarboxylase, alpha subunit; Region: mdcA; TIGR01110 980514004637 triphosphoribosyl-dephospho-CoA synthase; Validated; Region: PRK01237 980514004638 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189 980514004639 malonate decarboxylase, gamma subunit; Region: malonate_gamma; TIGR03134 980514004640 phosphoribosyl-dephospho-CoA transferase; Provisional; Region: PRK01293 980514004641 Phosphoribosyl-dephospho-CoA transferase MdcG; Region: MdcG; pfam10620 980514004642 malonate decarboxylase, epsilon subunit; Region: malonate_mdcH; TIGR03131 980514004643 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 980514004644 Malonate transporter MadL subunit; Region: MadL; cl04273 980514004645 malonate transporter, MadM subunit; Region: malonate_madM; TIGR00808 980514004646 Transcriptional regulator [Transcription]; Region: LysR; COG0583 980514004647 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514004648 The C-terminal substrate-binding domian of LysR-type transcriptional regulator MdcR, which involved in the malonate catabolism contains the type 2 periplasmic binding fold; Region: PBP2_MdcR; cd08416 980514004649 putative dimerization interface [polypeptide binding]; other site 980514004650 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 980514004651 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 980514004652 DNA-binding site [nucleotide binding]; DNA binding site 980514004653 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 980514004654 pyridoxal 5'-phosphate binding site [chemical binding]; other site 980514004655 homodimer interface [polypeptide binding]; other site 980514004656 catalytic residue [active] 980514004657 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 980514004658 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 980514004659 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 980514004660 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 980514004661 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 980514004662 active site 980514004663 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 980514004664 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 980514004665 active site 980514004666 non-prolyl cis peptide bond; other site 980514004667 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 980514004668 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 980514004669 putative substrate translocation pore; other site 980514004670 taurine ABC transporter, periplasmic binding protein; Region: taurine_ABC_bnd; TIGR01729 980514004671 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 980514004672 substrate binding pocket [chemical binding]; other site 980514004673 membrane-bound complex binding site; other site 980514004674 hinge residues; other site 980514004675 taurine transporter ATP-binding subunit; Provisional; Region: tauB; PRK11248 980514004676 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 980514004677 Walker A/P-loop; other site 980514004678 ATP binding site [chemical binding]; other site 980514004679 Q-loop/lid; other site 980514004680 ABC transporter signature motif; other site 980514004681 Walker B; other site 980514004682 D-loop; other site 980514004683 H-loop/switch region; other site 980514004684 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 980514004685 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 980514004686 dimer interface [polypeptide binding]; other site 980514004687 conserved gate region; other site 980514004688 putative PBP binding loops; other site 980514004689 ABC-ATPase subunit interface; other site 980514004690 taurine dioxygenase; Reviewed; Region: tauD; PRK09553 980514004691 Probable taurine catabolism dioxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: TauD; COG2175 980514004692 active site 980514004693 iron coordination sites [ion binding]; other site 980514004694 substrate binding pocket [chemical binding]; other site 980514004695 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 980514004696 uncharacterized nucleobase-cation-symport-1 (NCS1) transporter subfamily; solute-binding domain; Region: SLC-NCS1sbd_u1; cd11555 980514004697 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 980514004698 Na binding site [ion binding]; other site 980514004699 putative substrate binding site [chemical binding]; other site 980514004700 Transcriptional regulators [Transcription]; Region: GntR; COG1802 980514004701 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 980514004702 DNA-binding site [nucleotide binding]; DNA binding site 980514004703 FCD domain; Region: FCD; pfam07729 980514004704 Transcriptional regulator [Transcription]; Region: LysR; COG0583 980514004705 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514004706 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 980514004707 putative effector binding pocket; other site 980514004708 dimerization interface [polypeptide binding]; other site 980514004709 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 980514004710 Isochorismatase family; Region: Isochorismatase; pfam00857 980514004711 catalytic triad [active] 980514004712 dimer interface [polypeptide binding]; other site 980514004713 conserved cis-peptide bond; other site 980514004714 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 980514004715 YtcJ_like metal dependent amidohydrolases. YtcJ is a Bacillus subtilis ORF of unknown function. The Arabidopsis homolog LAF3 has been identified as a factor required for photochrome A signalling; Region: YtcJ_like; cd01300 980514004716 active site 980514004717 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 980514004718 ArsC family; Region: ArsC; pfam03960 980514004719 catalytic residues [active] 980514004720 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 980514004721 dimerization interface [polypeptide binding]; other site 980514004722 putative DNA binding site [nucleotide binding]; other site 980514004723 putative Zn2+ binding site [ion binding]; other site 980514004724 Arsenite efflux pump ACR3 and related permeases [Inorganic ion transport and metabolism]; Region: ACR3; COG0798 980514004725 arsenical-resistance protein; Region: acr3; TIGR00832 980514004726 Transcriptional regulator [Transcription]; Region: LysR; COG0583 980514004727 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514004728 The C-terminal substrate binding domain of LysR-type transcrptional regulator BudR, which is responsible for activation of the expression of the butanediol operon genes; contains the type 2 periplasmic binding fold; Region: PBP2_BudR; cd08451 980514004729 putative dimerization interface [polypeptide binding]; other site 980514004730 putative substrate binding pocket [chemical binding]; other site 980514004731 Chromate transporter; Region: Chromate_transp; pfam02417 980514004732 Chromate transporter; Region: Chromate_transp; pfam02417 980514004733 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 980514004734 Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) family, N-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which in turn catalyzes the reduction...; Region: AhpF_NTD_N; cd02974 980514004735 catalytic residue [active] 980514004736 TRX-GRX-like family, Alkyl hydroperoxide reductase F subunit (AhpF) N-terminal domain (NTD) subfamily, C-terminal TRX-fold subdomain; AhpF is a homodimeric flavoenzyme which catalyzes the NADH-dependent reduction of the peroxiredoxin AhpC, which then...; Region: AhpF_NTD_C; cd03026 980514004737 catalytic residues [active] 980514004738 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 980514004739 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 980514004740 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 980514004741 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 980514004742 TPR motif; other site 980514004743 binding surface 980514004744 serine O-acetyltransferase; Region: cysE; TIGR01172 980514004745 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 980514004746 trimer interface [polypeptide binding]; other site 980514004747 active site 980514004748 substrate binding site [chemical binding]; other site 980514004749 CoA binding site [chemical binding]; other site 980514004750 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 980514004751 SpoU rRNA Methylase family; Region: SpoU_methylase; cl17307 980514004752 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 980514004753 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 980514004754 putative active site [active] 980514004755 putative PHP Thumb interface [polypeptide binding]; other site 980514004756 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 980514004757 generic binding surface I; other site 980514004758 generic binding surface II; other site 980514004759 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 980514004760 active site 980514004761 homodimer interface [polypeptide binding]; other site 980514004762 homotetramer interface [polypeptide binding]; other site 980514004763 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 980514004764 Sodium:dicarboxylate symporter family; Region: SDF; cl00573 980514004765 aminotransferase AlaT; Validated; Region: PRK09265 980514004766 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 980514004767 pyridoxal 5'-phosphate binding site [chemical binding]; other site 980514004768 homodimer interface [polypeptide binding]; other site 980514004769 catalytic residue [active] 980514004770 methionine sulfoxide reductase B; Provisional; Region: PRK00222 980514004771 SelR domain; Region: SelR; pfam01641 980514004772 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 980514004773 catalytic residues [active] 980514004774 dimer interface [polypeptide binding]; other site 980514004775 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 980514004776 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 980514004777 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 980514004778 LysE type translocator; Region: LysE; cl00565 980514004779 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 980514004780 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 980514004781 pyridoxal 5'-phosphate binding site [chemical binding]; other site 980514004782 homodimer interface [polypeptide binding]; other site 980514004783 catalytic residue [active] 980514004784 PII uridylyl-transferase; Provisional; Region: glnD; PRK00275 980514004785 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 980514004786 metal binding triad; other site 980514004787 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 980514004788 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 980514004789 Zn2+ binding site [ion binding]; other site 980514004790 Mg2+ binding site [ion binding]; other site 980514004791 ACT domain family, ACT_UUR-like_1, includes the first of two C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_UUR-like_1; cd04900 980514004792 C-terminal ACT domains of the bacterial signal-transducing uridylyltransferase /uridylyl-removing (UUR) enzyme, GlnD and related domains; Region: ACT_ACR-UUR-like_2; cd04899 980514004793 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 980514004794 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 980514004795 ATP-grasp domain; Region: ATP-grasp; pfam02222 980514004796 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cl01268 980514004797 trimer interface [polypeptide binding]; other site 980514004798 putative substrate binding pocket [chemical binding]; other site 980514004799 4-Oxalocrotonate Tautomerase: Catalyzes the isomerization of unsaturated ketones. The structure is a homohexamer that is arranged as a trimer of dimers. The hexamer contains six active sites, each formed by residues from three monomers, two from one...; Region: 4Oxalocrotonate_Tautomerase; cl00235 980514004800 active site 1 [active] 980514004801 dimer interface [polypeptide binding]; other site 980514004802 hexamer interface [polypeptide binding]; other site 980514004803 active site 2 [active] 980514004804 putative L-valine exporter; Provisional; Region: PRK10408 980514004805 AzlC protein; Region: AzlC; cl00570 980514004806 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 980514004807 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 980514004808 ligand binding site [chemical binding]; other site 980514004809 flexible hinge region; other site 980514004810 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 980514004811 putative switch regulator; other site 980514004812 non-specific DNA interactions [nucleotide binding]; other site 980514004813 DNA binding site [nucleotide binding] 980514004814 sequence specific DNA binding site [nucleotide binding]; other site 980514004815 putative cAMP binding site [chemical binding]; other site 980514004816 Predicted membrane protein [Function unknown]; Region: COG4539 980514004817 GTP-binding protein YchF; Reviewed; Region: PRK09601 980514004818 YchF GTPase; Region: YchF; cd01900 980514004819 G1 box; other site 980514004820 GTP/Mg2+ binding site [chemical binding]; other site 980514004821 Switch I region; other site 980514004822 G2 box; other site 980514004823 Switch II region; other site 980514004824 G3 box; other site 980514004825 G4 box; other site 980514004826 G5 box; other site 980514004827 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 980514004828 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 980514004829 dimer interface [polypeptide binding]; other site 980514004830 conserved gate region; other site 980514004831 ABC-ATPase subunit interface; other site 980514004832 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 980514004833 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 980514004834 Walker A/P-loop; other site 980514004835 ATP binding site [chemical binding]; other site 980514004836 Q-loop/lid; other site 980514004837 ABC transporter signature motif; other site 980514004838 Walker B; other site 980514004839 D-loop; other site 980514004840 H-loop/switch region; other site 980514004841 This domain is found at the C-terminus of ABC transporter proteins involved in D-methionine transport as well as a number of ferredoxin-like proteins; Region: NIL; smart00930 980514004842 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 980514004843 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 980514004844 FMN-dependent oxidoreductase, nitrilotriacetate monooxygenase family; Region: FMN_nitrolo; TIGR03860 980514004845 nitrilotriacetate monoxygenase oxidizes nitrilotriacetate utilizing reduced flavin mononucleotide (FMNH2) and oxygen. The FMNH2 is provided by an NADH:flavin mononucleotide (FMN) oxidorductase that uses NADH to reduce FMN to FMNH2; Region: Nitrilotriacetate_monoxgenase; cd01095 980514004846 active site 980514004847 non-prolyl cis peptide bond; other site 980514004848 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 980514004849 Dibenzothiophene (DBT) desulfurization enzyme C; Region: DszC; cd01163 980514004850 Flavin binding site [chemical binding]; other site 980514004851 sulfur acquisition oxidoreductase, SfnB family; Region: sulfur_SfnB; TIGR04022 980514004852 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 980514004853 active site 980514004854 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 980514004855 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 980514004856 C-terminal domain interface [polypeptide binding]; other site 980514004857 GSH binding site (G-site) [chemical binding]; other site 980514004858 dimer interface [polypeptide binding]; other site 980514004859 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 980514004860 N-terminal domain interface [polypeptide binding]; other site 980514004861 glutamate and aspartate transporter subunit; Provisional; Region: PRK10797 980514004862 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 980514004863 substrate binding pocket [chemical binding]; other site 980514004864 membrane-bound complex binding site; other site 980514004865 hinge residues; other site 980514004866 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 980514004867 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 980514004868 dimer interface [polypeptide binding]; other site 980514004869 conserved gate region; other site 980514004870 putative PBP binding loops; other site 980514004871 ABC-ATPase subunit interface; other site 980514004872 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 980514004873 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 980514004874 dimer interface [polypeptide binding]; other site 980514004875 conserved gate region; other site 980514004876 putative PBP binding loops; other site 980514004877 ABC-ATPase subunit interface; other site 980514004878 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 980514004879 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 980514004880 Walker A/P-loop; other site 980514004881 ATP binding site [chemical binding]; other site 980514004882 Q-loop/lid; other site 980514004883 ABC transporter signature motif; other site 980514004884 Walker B; other site 980514004885 D-loop; other site 980514004886 H-loop/switch region; other site 980514004887 DNA polymerase III subunits gamma and tau; Validated; Region: PRK05563 980514004888 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 980514004889 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 980514004890 putative DNA binding site [nucleotide binding]; other site 980514004891 putative Zn2+ binding site [ion binding]; other site 980514004892 AsnC family; Region: AsnC_trans_reg; pfam01037 980514004893 integrase; Provisional; Region: int; PHA02601 980514004894 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 980514004895 active site 980514004896 DNA binding site [nucleotide binding] 980514004897 Int/Topo IB signature motif; other site 980514004898 Prophage antirepressor [Transcription]; Region: COG3617 980514004899 BRO family, N-terminal domain; Region: Bro-N; smart01040 980514004900 Predicted transcriptional regulator [Transcription]; Region: COG2932 980514004901 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 980514004902 Catalytic site [active] 980514004903 Protein of unknown function (DUF1376); Region: DUF1376; cl01531 980514004904 replicative DNA helicase; Region: DnaB; TIGR00665 980514004905 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 980514004906 RecA-like NTPases. This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and...; Region: RecA-like_NTPases; cl17233 980514004907 Walker A motif; other site 980514004908 ATP binding site [chemical binding]; other site 980514004909 Walker B motif; other site 980514004910 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 980514004911 catalytic site [active] 980514004912 Asp-box motif; other site 980514004913 Inorganic pyrophosphatase [Energy production and conversion]; Region: OVP1; COG3808 980514004914 Endolysins and autolysins are found in viruses and bacteria, respectively. The ds DNA phages of eubacteria use endolysins or muralytic enzymes in conjunction with hollin, a small membrane protein, to degrade the peptidoglycan found in bacterial cell...; Region: endolysin_autolysin; cd00737 980514004915 catalytic residues [active] 980514004916 hypothetical protein; Validated; Region: PRK00110 980514004917 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 980514004918 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 980514004919 putative acyl-acceptor binding pocket; other site 980514004920 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 980514004921 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 980514004922 Domain of unknown function (DUF4102); Region: DUF4102; pfam13356 980514004923 DNA breaking-rejoining enzymes, intergrase/recombinases, C-terminal catalytic domain. The tyrosine recombinase/integrase family share the same catalytic domain containing six conserved active site residues. The best-studied members of this diverse family...; Region: INT_REC_C; cd01182 980514004924 active site 980514004925 catalytic residues [active] 980514004926 Int/Topo IB signature motif; other site 980514004927 DNA binding site [nucleotide binding] 980514004928 Transcriptional regulator [Transcription]; Region: LysR; COG0583 980514004929 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514004930 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 980514004931 dimerization interface [polypeptide binding]; other site 980514004932 Predicted membrane protein [Function unknown]; Region: COG4125 980514004933 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 980514004934 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 980514004935 Purine-cytosine permease and related proteins [Nucleotide transport and metabolism]; Region: CodB; COG1457 980514004936 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 980514004937 Na binding site [ion binding]; other site 980514004938 EamA-like transporter family; Region: EamA; pfam00892 980514004939 Transcriptional regulator [Transcription]; Region: LysR; COG0583 980514004940 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514004941 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 980514004942 dimerization interface [polypeptide binding]; other site 980514004943 putative major fimbrial protein SthE; Provisional; Region: PRK15292 980514004944 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 980514004945 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 980514004946 PapC N-terminal domain; Region: PapC_N; pfam13954 980514004947 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 980514004948 PapC C-terminal domain; Region: PapC_C; pfam13953 980514004949 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 980514004950 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 980514004951 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 980514004952 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 980514004953 biotin synthase; Provisional; Region: PRK15108 980514004954 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 980514004955 FeS/SAM binding site; other site 980514004956 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 980514004957 epoxyqueuosine reductase; Region: TIGR00276 980514004958 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 980514004959 putative carbohydrate kinase; Provisional; Region: PRK10565 980514004960 YjeF-related protein N-terminus; Region: YjeF_N; pfam03853 980514004961 B.subtilis YXKO protein of unknown function and related proteins. Based on the conservation of the ATP binding site, the substrate binding site and the Mg2+binding site and structural homology this group is a member of the ribokinase-like superfamily; Region: YXKO-related; cd01171 980514004962 putative substrate binding site [chemical binding]; other site 980514004963 putative ATP binding site [chemical binding]; other site 980514004964 Holliday junction resolvases (HJRs) are endonucleases that specifically resolve Holliday junction DNA intermediates during homologous recombination. HJR's occur in archaea, bacteria, and in the mitochondria of certain fungi, however this CD...; Region: RuvC_resolvase; cd00529 980514004965 active site 980514004966 putative DNA-binding cleft [nucleotide binding]; other site 980514004967 dimer interface [polypeptide binding]; other site 980514004968 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 980514004969 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 980514004970 non-specific DNA binding site [nucleotide binding]; other site 980514004971 salt bridge; other site 980514004972 sequence-specific DNA binding site [nucleotide binding]; other site 980514004973 Cupin domain; Region: Cupin_2; cl17218 980514004974 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 980514004975 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 980514004976 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 980514004977 FxsA cytoplasmic membrane protein; Region: FxsA; pfam04186 980514004978 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 980514004979 Active Sites [active] 980514004980 Bacteriophage replication protein O; Region: Phage_rep_O; cl04545 980514004981 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 980514004982 Ligand Binding Site [chemical binding]; other site 980514004983 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 980514004984 non-specific DNA binding site [nucleotide binding]; other site 980514004985 salt bridge; other site 980514004986 Predicted transcriptional regulator [Transcription]; Region: COG2932 980514004987 sequence-specific DNA binding site [nucleotide binding]; other site 980514004988 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 980514004989 Catalytic site [active] 980514004990 KTSC domain; Region: KTSC; pfam13619 980514004991 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 980514004992 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 980514004993 active site 980514004994 DNA binding site [nucleotide binding] 980514004995 Int/Topo IB signature motif; other site 980514004996 AAA domain; Region: AAA_33; pfam13671 980514004997 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 980514004998 S-adenosylmethionine synthetase; Validated; Region: PRK05250 980514004999 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 980514005000 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 980514005001 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 980514005002 transketolase; Reviewed; Region: PRK12753 980514005003 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 980514005004 TPP-binding site [chemical binding]; other site 980514005005 dimer interface [polypeptide binding]; other site 980514005006 ATP synthase B/B' CF(0); Region: ATP-synt_B; cl17192 980514005007 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 980514005008 PYR/PP interface [polypeptide binding]; other site 980514005009 dimer interface [polypeptide binding]; other site 980514005010 TPP binding site [chemical binding]; other site 980514005011 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 980514005012 OsmC-like protein; Region: OsmC; pfam02566 980514005013 Uncharacterized conserved protein [Function unknown]; Region: COG2353 980514005014 Lecithin retinol acyltransferase; Region: LRAT; pfam04970 980514005015 Predicted periplasmic protein [Function unknown]; Region: COG3698 980514005016 Predicted periplasmic protein (DUF2233); Region: DUF2233; pfam09992 980514005017 tRNA (uracil-5-)-methyltransferase; Validated; Region: PRK05031 980514005018 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 980514005019 S-adenosylmethionine binding site [chemical binding]; other site 980514005020 Uncharacterized protein family (UPF0157); Region: UPF0157; cl00987 980514005021 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11905 980514005022 Proline dehydrogenase [Amino acid transport and metabolism]; Region: PutA; COG0506 980514005023 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 980514005024 Glutamate binding site [chemical binding]; other site 980514005025 NAD binding site [chemical binding]; other site 980514005026 catalytic residues [active] 980514005027 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 980514005028 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 980514005029 dimerization interface [polypeptide binding]; other site 980514005030 putative DNA binding site [nucleotide binding]; other site 980514005031 putative Zn2+ binding site [ion binding]; other site 980514005032 AsnC family; Region: AsnC_trans_reg; pfam01037 980514005033 Na(+)/proline cotransporter PutP and related proteins; solute binding domain; Region: SLC5sbd_PutP; cd11475 980514005034 Na binding site [ion binding]; other site 980514005035 NAD-dependent deacetylase; Provisional; Region: PRK00481 980514005036 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 980514005037 NAD+ binding site [chemical binding]; other site 980514005038 substrate binding site [chemical binding]; other site 980514005039 Zn binding site [ion binding]; other site 980514005040 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 980514005041 lipoyl attachment site [posttranslational modification]; other site 980514005042 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 980514005043 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 980514005044 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 980514005045 YdeM is a Bacillus subtilis protein that belongs to a family of prokaryotic proteins of unkown function. YdeM has sequence similarity to the hot-dog fold of (R)-specific enoyl-CoA hydratase. Other enzymes with this fold include the peroxisomal...; Region: YdeM; cd03454 980514005046 putative active site [active] 980514005047 putative catalytic site [active] 980514005048 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 980514005049 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 980514005050 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 980514005051 Walker A/P-loop; other site 980514005052 ATP binding site [chemical binding]; other site 980514005053 Q-loop/lid; other site 980514005054 ABC transporter signature motif; other site 980514005055 Walker B; other site 980514005056 D-loop; other site 980514005057 H-loop/switch region; other site 980514005058 Uncharacterized protein conserved in bacteria (DUF2058); Region: DUF2058; pfam09831 980514005059 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 980514005060 serine/threonine transporter SstT; Provisional; Region: PRK13628 980514005061 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 980514005062 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 980514005063 dimerization interface [polypeptide binding]; other site 980514005064 putative DNA binding site [nucleotide binding]; other site 980514005065 putative Zn2+ binding site [ion binding]; other site 980514005066 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 980514005067 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 980514005068 Cupin superfamily protein; Region: Cupin_4; pfam08007 980514005069 Cupin-like domain; Region: Cupin_8; pfam13621 980514005070 Maf-like protein; Region: Maf; pfam02545 980514005071 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 980514005072 active site 980514005073 dimer interface [polypeptide binding]; other site 980514005074 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; pfam09996 980514005075 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 980514005076 Phosphoglycerate kinase; Region: PGK; pfam00162 980514005077 substrate binding site [chemical binding]; other site 980514005078 hinge regions; other site 980514005079 ADP binding site [chemical binding]; other site 980514005080 catalytic site [active] 980514005081 Tagatose-1,6-bisphosphate (TBP) aldolase and related Type B Class II aldolases. TBP aldolase is a tetrameric class II aldolase that catalyzes the reversible condensation of dihydroxyacetone phosphate with glyceraldehyde 3-phsophate to produce tagatose 1; Region: TBP_aldolase_IIB; cd00947 980514005082 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 980514005083 intersubunit interface [polypeptide binding]; other site 980514005084 active site 980514005085 zinc binding site [ion binding]; other site 980514005086 Na+ binding site [ion binding]; other site 980514005087 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 980514005088 SurA N-terminal domain; Region: SurA_N; pfam09312 980514005089 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 980514005090 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 980514005091 Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]; Region: Imp; COG1452 980514005092 OstA-like protein; Region: OstA; cl00844 980514005093 Organic solvent tolerance protein; Region: OstA_C; pfam04453 980514005094 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 980514005095 Phosphotransferase enzyme family; Region: APH; pfam01636 980514005096 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 980514005097 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 980514005098 Substrate binding site; other site 980514005099 metal-binding site 980514005100 16S rRNA methyltransferase GidB; Reviewed; Region: gidB; PRK00107 980514005101 rRNA small subunit methyltransferase G; Region: GidB; pfam02527 980514005102 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 980514005103 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 980514005104 P-loop; other site 980514005105 Magnesium ion binding site [ion binding]; other site 980514005106 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 980514005107 Magnesium ion binding site [ion binding]; other site 980514005108 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 980514005109 ParB-like nuclease domain; Region: ParB; smart00470 980514005110 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 980514005111 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 980514005112 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 980514005113 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 980514005114 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 980514005115 ATP-binding cassette domain of the bacterial lipid flippase and related proteins, subfamily C; Region: ABCC_MsbA; cd03251 980514005116 Walker A/P-loop; other site 980514005117 ATP binding site [chemical binding]; other site 980514005118 Q-loop/lid; other site 980514005119 ABC transporter signature motif; other site 980514005120 Walker B; other site 980514005121 D-loop; other site 980514005122 H-loop/switch region; other site 980514005123 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 980514005124 Tetraacyldisaccharide-1-P 4'-kinase; Region: LpxK; pfam02606 980514005125 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 980514005126 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 980514005127 Ligand binding site; other site 980514005128 oligomer interface; other site 980514005129 DNA polymerase III subunit delta'; Validated; Region: PRK05707 980514005130 PilZ domain; Region: PilZ; cl01260 980514005131 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 980514005132 active site 980514005133 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 980514005134 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 980514005135 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 980514005136 type II secretion system protein J; Region: gspJ; TIGR01711 980514005137 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 980514005138 Type II secretion system (T2SS), protein J; Region: T2SJ; pfam11612 980514005139 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 980514005140 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 980514005141 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 980514005142 ligand binding site [chemical binding]; other site 980514005143 active site 980514005144 UGI interface [polypeptide binding]; other site 980514005145 catalytic site [active] 980514005146 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 980514005147 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 980514005148 substrate binding site [chemical binding]; other site 980514005149 oxyanion hole (OAH) forming residues; other site 980514005150 trimer interface [polypeptide binding]; other site 980514005151 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 980514005152 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 980514005153 nucleoside/Zn binding site; other site 980514005154 dimer interface [polypeptide binding]; other site 980514005155 catalytic motif [active] 980514005156 Pyrabactin resistance 1 (PYR1), PYR1-like (PYL), regulatory component of abscisic acid receptors (RCARs), and related proteins; Region: PYR_PYL_RCAR_like; cd07821 980514005157 putative hydrophobic ligand binding site [chemical binding]; other site 980514005158 protein interface [polypeptide binding]; other site 980514005159 gate; other site 980514005160 cytidylate kinase; Provisional; Region: cmk; PRK00023 980514005161 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 980514005162 CMP-binding site; other site 980514005163 The sites determining sugar specificity; other site 980514005164 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 980514005165 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 980514005166 RNA binding site [nucleotide binding]; other site 980514005167 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 980514005168 RNA binding site [nucleotide binding]; other site 980514005169 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 980514005170 RNA binding site [nucleotide binding]; other site 980514005171 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 980514005172 RNA binding site [nucleotide binding]; other site 980514005173 S1_RPS1_repeat_ec5: 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_ec5; cd05690 980514005174 RNA binding site [nucleotide binding]; other site 980514005175 S1_RPS1_repeat_ec6: 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_ec6; cd05691 980514005176 RNA binding site [nucleotide binding]; other site 980514005177 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 980514005178 IHF dimer interface [polypeptide binding]; other site 980514005179 IHF - DNA interface [nucleotide binding]; other site 980514005180 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 980514005181 active site 980514005182 dimer interface [polypeptide binding]; other site 980514005183 Membrane protein of unknown function (DUF340); Region: DUF340; cl01028 980514005184 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 980514005185 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 980514005186 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 980514005187 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 980514005188 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 980514005189 Predicted ATPase [General function prediction only]; Region: COG1485 980514005190 malate synthase G; Provisional; Region: PRK02999 980514005191 active site 980514005192 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 980514005193 Coenzyme A binding pocket [chemical binding]; other site 980514005194 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 980514005195 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 980514005196 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 980514005197 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 980514005198 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 980514005199 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 980514005200 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 980514005201 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 980514005202 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 980514005203 N-terminal plug; other site 980514005204 ligand-binding site [chemical binding]; other site 980514005205 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_18; cd08505 980514005206 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 980514005207 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_18; cd08505 980514005208 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 980514005209 Peptidase M3 Thimet oligopeptidase (TOP) also includes neurolysin; Region: M3A_TOP; cd06455 980514005210 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 980514005211 active site 980514005212 Zn binding site [ion binding]; other site 980514005213 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 980514005214 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 980514005215 dimer interface [polypeptide binding]; other site 980514005216 conserved gate region; other site 980514005217 putative PBP binding loops; other site 980514005218 ABC-ATPase subunit interface; other site 980514005219 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 980514005220 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 980514005221 dimer interface [polypeptide binding]; other site 980514005222 conserved gate region; other site 980514005223 putative PBP binding loops; other site 980514005224 ABC-ATPase subunit interface; other site 980514005225 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 980514005226 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 980514005227 Walker A/P-loop; other site 980514005228 ATP binding site [chemical binding]; other site 980514005229 Q-loop/lid; other site 980514005230 ABC transporter signature motif; other site 980514005231 Walker B; other site 980514005232 D-loop; other site 980514005233 H-loop/switch region; other site 980514005234 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 980514005235 Walker A/P-loop; other site 980514005236 ATP binding site [chemical binding]; other site 980514005237 Q-loop/lid; other site 980514005238 ABC transporter signature motif; other site 980514005239 Walker B; other site 980514005240 D-loop; other site 980514005241 H-loop/switch region; other site 980514005242 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 980514005243 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 980514005244 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 980514005245 CysQ, a 3'-Phosphoadenosine-5'-phosphosulfate (PAPS) 3'-phosphatase, is a bacterial member of the inositol monophosphatase family. It has been proposed that CysQ helps control intracellular levels of PAPS, which is an intermediate in...; Region: CysQ; cd01638 980514005246 active site 980514005247 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 980514005248 catalytic core [active] 980514005249 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 980514005250 CC3(TIP30)-like, atypical (a) SDRs; Region: CC3_like_SDR_a; cd05250 980514005251 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 980514005252 NAD binding site [chemical binding]; other site 980514005253 active site 980514005254 ribonuclease activity regulator protein RraA; Provisional; Region: PRK09372 980514005255 GST_N family, 2 repeats of the N-terminal domain of soluble GSTs (2 GST_N) subfamily; composed of uncharacterized proteins. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a...; Region: GST_N_2GST_N; cd03041 980514005256 putative C-terminal domain interface [polypeptide binding]; other site 980514005257 putative GSH binding site (G-site) [chemical binding]; other site 980514005258 putative dimer interface [polypeptide binding]; other site 980514005259 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 980514005260 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 980514005261 Dyp-type peroxidase family; Region: Dyp_perox; cl01067 980514005262 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 980514005263 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 980514005264 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 980514005265 ATP binding site [chemical binding]; other site 980514005266 putative Mg++ binding site [ion binding]; other site 980514005267 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 980514005268 nucleotide binding region [chemical binding]; other site 980514005269 ATP-binding site [chemical binding]; other site 980514005270 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 980514005271 HIT family: HIT (Histidine triad) proteins, named for a motif related to the sequence HxHxH/Qxx (x, a hydrophobic amino acid), are a superfamily of nucleotide hydrolases and transferases, which act on the alpha-phosphate of ribonucleotides. On the basis...; Region: HIT_like; cl00228 980514005272 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 980514005273 cyclase homology domain; Region: CHD; cd07302 980514005274 nucleotidyl binding site; other site 980514005275 metal binding site [ion binding]; metal-binding site 980514005276 dimer interface [polypeptide binding]; other site 980514005277 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 980514005278 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 980514005279 catalytic loop [active] 980514005280 iron binding site [ion binding]; other site 980514005281 chaperone protein HscA; Provisional; Region: hscA; PRK05183 980514005282 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 980514005283 nucleotide binding site [chemical binding]; other site 980514005284 putative NEF/HSP70 interaction site [polypeptide binding]; other site 980514005285 SBD interface [polypeptide binding]; other site 980514005286 co-chaperone HscB; Provisional; Region: hscB; PRK05014 980514005287 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 980514005288 HSP70 interaction site [polypeptide binding]; other site 980514005289 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 980514005290 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 980514005291 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 980514005292 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 980514005293 trimerization site [polypeptide binding]; other site 980514005294 active site 980514005295 cysteine desulfurase; Provisional; Region: PRK14012 980514005296 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 980514005297 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 980514005298 catalytic residue [active] 980514005299 Transcriptional regulator; Region: Rrf2; cl17282 980514005300 Rrf2 family protein; Region: rrf2_super; TIGR00738 980514005301 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; pfam05597 980514005302 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 980514005303 IHF dimer interface [polypeptide binding]; other site 980514005304 IHF - DNA interface [nucleotide binding]; other site 980514005305 periplasmic folding chaperone; Provisional; Region: PRK10788 980514005306 SurA N-terminal domain; Region: SurA_N_3; cl07813 980514005307 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 980514005308 Cupin; Region: Cupin_6; pfam12852 980514005309 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 980514005310 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 980514005311 Alkane hydroxylase is a bacterial, integral-membrane di-iron enzyme that shares a requirement for iron and oxygen for activity similar to that of the non-heme integral-membrane acyl coenzyme A (CoA) desaturases and acyl lipid desaturases. The alk genes...; Region: Alkane-hydroxylase; cd03512 980514005312 Fatty acid desaturase; Region: FA_desaturase; pfam00487 980514005313 Di-iron ligands [ion binding]; other site 980514005314 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 980514005315 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 980514005316 active site 980514005317 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 980514005318 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 980514005319 active site 980514005320 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 980514005321 ABC1 family; Region: ABC1; cl17513 980514005322 This CD includes cysteinyl-tRNA(Pro) deacylases from Haemophilus influenzae and Escherichia coli and other related bacterial proteins. These trans-acting, single-domain proteins are homologs of ProX and also the cis-acting prolyl-tRNA synthetase (ProRS)...; Region: YbaK_deacylase; cd00002 980514005323 putative deacylase active site [active] 980514005324 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 980514005325 IucA / IucC family; Region: IucA_IucC; pfam04183 980514005326 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 980514005327 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 980514005328 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 980514005329 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 980514005330 Major Facilitator Superfamily; Region: MFS_1; pfam07690 980514005331 putative substrate translocation pore; other site 980514005332 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 980514005333 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 980514005334 IucA / IucC family; Region: IucA_IucC; pfam04183 980514005335 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 980514005336 Siderophore synthetase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: RhbC; COG4264 980514005337 IucA / IucC family; Region: IucA_IucC; pfam04183 980514005338 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 980514005339 FhuF 2Fe-2S C-terminal domain; Region: FhuF_C; pfam11575 980514005340 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 980514005341 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 980514005342 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 980514005343 N-terminal plug; other site 980514005344 ligand-binding site [chemical binding]; other site 980514005345 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 980514005346 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 980514005347 Acetyltransferase (GNAT) domain; Region: Acetyltransf_8; pfam13523 980514005348 Siderophore biosynthesis protein domain; Region: AlcB; smart01006 980514005349 beta-phosphoglucomutase family hydrolase; Region: PGMB-YQAB-SF; TIGR02009 980514005350 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 980514005351 motif II; other site 980514005352 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 980514005353 2'-5' RNA ligase superfamily; Region: 2_5_RNA_ligase2; pfam13563 980514005354 Cellular and retroviral pepsin-like aspartate proteases; Region: pepsin_retropepsin_like; cl11403 980514005355 Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU). CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a...; Region: CobU; cd00544 980514005356 homotrimer interface [polypeptide binding]; other site 980514005357 Walker A motif; other site 980514005358 GTP binding site [chemical binding]; other site 980514005359 Walker B motif; other site 980514005360 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 980514005361 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 980514005362 putative dimer interface [polypeptide binding]; other site 980514005363 active site pocket [active] 980514005364 putative cataytic base [active] 980514005365 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 980514005366 catalytic core [active] 980514005367 Histidine phosphatase domain found in histidine acid phosphatases and phytases; contains a His residue which is phosphorylated during the reaction; Region: HP_HAP_like; cd07061 980514005368 cobalamin synthase; Reviewed; Region: cobS; PRK00235 980514005369 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 980514005370 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 980514005371 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 980514005372 PepSY-associated TM helix; Region: PepSY_TM_3; pfam13706 980514005373 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 980514005374 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 980514005375 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 980514005376 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 980514005377 N-terminal plug; other site 980514005378 ligand-binding site [chemical binding]; other site 980514005379 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 980514005380 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 980514005381 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 980514005382 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 980514005383 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 980514005384 putative efflux pump membrane fusion protein; Provisional; Region: PRK03598 980514005385 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 980514005386 HlyD family secretion protein; Region: HlyD_3; pfam13437 980514005387 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 980514005388 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 980514005389 Walker A/P-loop; other site 980514005390 ATP binding site [chemical binding]; other site 980514005391 Q-loop/lid; other site 980514005392 ABC transporter signature motif; other site 980514005393 Walker B; other site 980514005394 D-loop; other site 980514005395 H-loop/switch region; other site 980514005396 ABC-type Na+ transport system, ATPase component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatA; COG4555 980514005397 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 980514005398 Walker A/P-loop; other site 980514005399 ATP binding site [chemical binding]; other site 980514005400 Q-loop/lid; other site 980514005401 ABC transporter signature motif; other site 980514005402 Walker B; other site 980514005403 D-loop; other site 980514005404 H-loop/switch region; other site 980514005405 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 980514005406 ABC-2 family transporter protein; Region: ABC2_membrane_2; pfam12679 980514005407 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 980514005408 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 980514005409 Protein of unknown function (DUF2797); Region: DUF2797; pfam10977 980514005410 Bacterial protein of unknown function (DUF937); Region: DUF937; cl01528 980514005411 Porins form aqueous channels for the diffusion of small hydrophillic molecules across the outer membrane. Individual 16-strand anti-parallel beta-barrels form a central pore, and trimerizes thru mainly hydrophobic interactions at the interface. Trimers...; Region: gram_neg_porins; cd00342 980514005412 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 980514005413 eyelet of channel; other site 980514005414 trimer interface [polypeptide binding]; other site 980514005415 HINT (histidine triad nucleotide-binding protein) subgroup: Members of this CD belong to the superfamily of histidine triad hydrolases that act on alpha-phosphate of ribonucleotides. This subgroup includes members from all three forms of cellular life; Region: HINT_subgroup; cd01277 980514005416 HIT family signature motif; other site 980514005417 catalytic residue [active] 980514005418 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; pfam04828 980514005419 TonB C terminal; Region: TonB_2; pfam13103 980514005420 Methyltransferase domain; Region: Methyltransf_23; pfam13489 980514005421 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 980514005422 S-adenosylmethionine binding site [chemical binding]; other site 980514005423 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 980514005424 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 980514005425 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 980514005426 homodimer interface [polypeptide binding]; other site 980514005427 substrate-cofactor binding pocket; other site 980514005428 pyridoxal 5'-phosphate binding site [chemical binding]; other site 980514005429 catalytic residue [active] 980514005430 hypothetical protein; Validated; Region: PRK00153 980514005431 recombination protein RecR; Reviewed; Region: recR; PRK00076 980514005432 RecR protein; Region: RecR; pfam02132 980514005433 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 980514005434 putative active site [active] 980514005435 putative metal-binding site [ion binding]; other site 980514005436 tetramer interface [polypeptide binding]; other site 980514005437 Ribonuclease D [Translation, ribosomal structure and biogenesis]; Region: Rnd; COG0349 980514005438 DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins; Region: RNaseD_exo; cd06142 980514005439 catalytic site [active] 980514005440 putative active site [active] 980514005441 putative substrate binding site [chemical binding]; other site 980514005442 HRDC domain; Region: HRDC; pfam00570 980514005443 YcgL domain; Region: YcgL; pfam05166 980514005444 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 980514005445 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 980514005446 Walker A motif; other site 980514005447 ATP binding site [chemical binding]; other site 980514005448 Walker B motif; other site 980514005449 arginine finger; other site 980514005450 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 980514005451 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 980514005452 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 980514005453 pyridoxal 5'-phosphate binding site [chemical binding]; other site 980514005454 catalytic residue [active] 980514005455 HemK family putative methylases; Region: hemK_fam; TIGR00536 980514005456 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 980514005457 S-adenosylmethionine binding site [chemical binding]; other site 980514005458 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 980514005459 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 980514005460 Tetramer interface [polypeptide binding]; other site 980514005461 active site 980514005462 FMN-binding site [chemical binding]; other site 980514005463 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 980514005464 metal binding site [ion binding]; metal-binding site 980514005465 active site 980514005466 I-site; other site 980514005467 TENA/THI-4/PQQC family; Region: TENA_THI-4; cl15243 980514005468 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 980514005469 lipoyl synthase; Provisional; Region: PRK12928 980514005470 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 980514005471 FeS/SAM binding site; other site 980514005472 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 980514005473 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 980514005474 tetramer interface [polypeptide binding]; other site 980514005475 TPP-binding site [chemical binding]; other site 980514005476 heterodimer interface [polypeptide binding]; other site 980514005477 phosphorylation loop region [posttranslational modification] 980514005478 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 980514005479 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 980514005480 alpha subunit interface [polypeptide binding]; other site 980514005481 TPP binding site [chemical binding]; other site 980514005482 heterodimer interface [polypeptide binding]; other site 980514005483 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 980514005484 pyruvate dehydrogenase complex dihydrolipoamide acetyltransferase, long form; Region: PDHac_trf_mito; TIGR01349 980514005485 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 980514005486 E3 interaction surface; other site 980514005487 lipoyl attachment site [posttranslational modification]; other site 980514005488 e3 binding domain; Region: E3_binding; pfam02817 980514005489 e3 binding domain; Region: E3_binding; pfam02817 980514005490 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 980514005491 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06416 980514005492 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 980514005493 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 980514005494 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 980514005495 meso-2,3-butanediol dehydrogenase-like, classical (c) SDRs; Region: meso-BDH-like_SDR_c; cd05366 980514005496 acetoin reductases; Region: 23BDH; TIGR02415 980514005497 NAD binding site [chemical binding]; other site 980514005498 homotetramer interface [polypeptide binding]; other site 980514005499 homodimer interface [polypeptide binding]; other site 980514005500 active site 980514005501 substrate binding site [chemical binding]; other site 980514005502 (2R,3R)-2,3-butanediol dehydrogenase; Region: butanediol_DH_like; cd08233 980514005503 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 980514005504 putative NAD(P) binding site [chemical binding]; other site 980514005505 catalytic Zn binding site [ion binding]; other site 980514005506 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 980514005507 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 980514005508 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 980514005509 Walker A motif; other site 980514005510 ATP binding site [chemical binding]; other site 980514005511 Walker B motif; other site 980514005512 arginine finger; other site 980514005513 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 980514005514 Putative phosphatase (DUF442); Region: DUF442; cl17385 980514005515 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 980514005516 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 980514005517 Homoserine dehydrogenase [Amino acid transport and metabolism]; Region: ThrA; COG0460 980514005518 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 980514005519 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 980514005520 EamA-like transporter family; Region: EamA; pfam00892 980514005521 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 980514005522 EamA-like transporter family; Region: EamA; pfam00892 980514005523 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 980514005524 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 980514005525 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 980514005526 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 980514005527 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 980514005528 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 980514005529 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 980514005530 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 980514005531 Chromate transporter; Region: Chromate_transp; pfam02417 980514005532 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 980514005533 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 980514005534 DNA-binding site [nucleotide binding]; DNA binding site 980514005535 UTRA domain; Region: UTRA; pfam07702 980514005536 putative oxidoreductase; Provisional; Region: PRK08275 980514005537 L-aspartate oxidase; Provisional; Region: PRK06175 980514005538 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 980514005539 Ferredoxin [Energy production and conversion]; Region: COG1146 980514005540 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cl17432 980514005541 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 980514005542 substrate binding pocket [chemical binding]; other site 980514005543 membrane-bound complex binding site; other site 980514005544 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 980514005545 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 980514005546 dimer interface [polypeptide binding]; other site 980514005547 conserved gate region; other site 980514005548 putative PBP binding loops; other site 980514005549 ABC-ATPase subunit interface; other site 980514005550 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 980514005551 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 980514005552 Walker A/P-loop; other site 980514005553 ATP binding site [chemical binding]; other site 980514005554 Q-loop/lid; other site 980514005555 ABC transporter signature motif; other site 980514005556 Walker B; other site 980514005557 D-loop; other site 980514005558 H-loop/switch region; other site 980514005559 HEAT repeats; Region: HEAT_2; pfam13646 980514005560 HEAT repeats; Region: HEAT_2; pfam13646 980514005561 HEAT repeats; Region: HEAT_2; pfam13646 980514005562 Protein of unknown function (DUF971); Region: DUF971; pfam06155 980514005563 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 980514005564 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 980514005565 putative substrate translocation pore; other site 980514005566 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 980514005567 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 980514005568 N-terminal plug; other site 980514005569 ligand-binding site [chemical binding]; other site 980514005570 aspartate ammonia-lyase; Provisional; Region: aspA; PRK12273 980514005571 Aspartase; Region: Aspartase; cd01357 980514005572 active sites [active] 980514005573 tetramer interface [polypeptide binding]; other site 980514005574 cell density-dependent motility repressor; Provisional; Region: PRK10082 980514005575 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514005576 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 980514005577 dimerization interface [polypeptide binding]; other site 980514005578 Transcriptional regulator [Transcription]; Region: LysR; COG0583 980514005579 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514005580 The C-terminal substrate binding domain of LysR-type transcriptional regulators that are involved in the catabolism of dinitrotoluene, naphthalene and gamma-hexachlorohexane; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_NahR_LinR_like; cd08459 980514005581 substrate binding pocket [chemical binding]; other site 980514005582 dimerization interface [polypeptide binding]; other site 980514005583 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 980514005584 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 980514005585 dimer interface [polypeptide binding]; other site 980514005586 active site 980514005587 Short chain fatty acids transporter [Lipid metabolism]; Region: AtoE; COG2031 980514005588 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 980514005589 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 980514005590 Transcriptional regulator [Transcription]; Region: LysR; COG0583 980514005591 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514005592 TThe C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_4; cd08440 980514005593 putative dimerization interface [polypeptide binding]; other site 980514005594 H+/gluconate symporter and related permeases [Carbohydrate transport and metabolism / Amino acid transport and metabolism]; Region: GntT; COG2610 980514005595 fructuronate transporter; Provisional; Region: PRK10034; cl15264 980514005596 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 980514005597 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 980514005598 NAD(P) binding site [chemical binding]; other site 980514005599 active site 980514005600 Helix-turn-helix domain; Region: HTH_18; pfam12833 980514005601 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 980514005602 benzoate transport; Region: 2A0115; TIGR00895 980514005603 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 980514005604 putative substrate translocation pore; other site 980514005605 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 980514005606 Dienelactone hydrolase family; Region: DLH; pfam01738 980514005607 SnoaL-like domain; Region: SnoaL_2; pfam12680 980514005608 short chain dehydrogenase; Provisional; Region: PRK08265 980514005609 classical (c) SDRs; Region: SDR_c; cd05233 980514005610 NAD(P) binding site [chemical binding]; other site 980514005611 active site 980514005612 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 980514005613 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; cl01768 980514005614 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 980514005615 Helix-turn-helix domain; Region: HTH_18; pfam12833 980514005616 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 980514005617 anthranilate dioxygenase reductase; Provisional; Region: antC; PRK11872 980514005618 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 980514005619 catalytic loop [active] 980514005620 iron binding site [ion binding]; other site 980514005621 Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal...; Region: BenDO_FAD_NAD; cd06209 980514005622 FAD binding pocket [chemical binding]; other site 980514005623 FAD binding motif [chemical binding]; other site 980514005624 phosphate binding motif [ion binding]; other site 980514005625 beta-alpha-beta structure motif; other site 980514005626 NAD binding pocket [chemical binding]; other site 980514005627 Ring hydroxylating dioxygenase beta subunit. This subunit has a similar structure to NTF-2, Ketosteroid isomerase and scytalone dehydratase.The degradation of aromatic compounds by aerobic bacteria frequently begins with the dihydroxylation of the...; Region: ring_hydroxylating_dioxygenases_beta; cd00667 980514005628 inter-subunit interface; other site 980514005629 anthranilate 1,2-dioxygenase, large subunit; Region: anthran_1_2_A; TIGR03228 980514005630 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 980514005631 [2Fe-2S] cluster binding site [ion binding]; other site 980514005632 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 980514005633 putative alpha subunit interface [polypeptide binding]; other site 980514005634 putative active site [active] 980514005635 putative substrate binding site [chemical binding]; other site 980514005636 Fe binding site [ion binding]; other site 980514005637 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 980514005638 molybdate transporter periplasmic protein; Provisional; Region: modA; PRK10677 980514005639 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 980514005640 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 980514005641 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 980514005642 dimer interface [polypeptide binding]; other site 980514005643 conserved gate region; other site 980514005644 putative PBP binding loops; other site 980514005645 ABC-ATPase subunit interface; other site 980514005646 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 980514005647 phosphonate C-P lyase system protein PhnL; Region: CP_lyasePhnL; TIGR02324 980514005648 Walker A/P-loop; other site 980514005649 ATP binding site [chemical binding]; other site 980514005650 Q-loop/lid; other site 980514005651 ABC transporter signature motif; other site 980514005652 Walker B; other site 980514005653 D-loop; other site 980514005654 H-loop/switch region; other site 980514005655 2,3-dihydroxybenzoate-2,3-dehydrogenase; Validated; Region: PRK08220 980514005656 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 980514005657 NAD(P) binding site [chemical binding]; other site 980514005658 active site 980514005659 Isochorismatase, also known as 2,3 dihydro-2,3 dihydroxybenzoate synthase, catalyses the conversion of isochorismate, in the presence of water, to 2,3-dihydroxybenzoate and pyruvate, via the hydrolysis of a vinyl ether, an uncommon reaction in biological...; Region: isochorismatase; cd01013 980514005660 hydrophobic substrate binding pocket; other site 980514005661 Isochorismatase family; Region: Isochorismatase; pfam00857 980514005662 active site 980514005663 conserved cis-peptide bond; other site 980514005664 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 980514005665 metal binding site 2 [ion binding]; metal-binding site 980514005666 putative DNA binding helix; other site 980514005667 metal binding site 1 [ion binding]; metal-binding site 980514005668 dimer interface [polypeptide binding]; other site 980514005669 structural Zn2+ binding site [ion binding]; other site 980514005670 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 980514005671 Bacillus subtilis YhcR endonuclease and related proteins, N-terminal metallophosphatase domain; Region: MPP_YhcR_N; cd07412 980514005672 putative active site [active] 980514005673 putative metal binding site [ion binding]; other site 980514005674 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 980514005675 polyphosphate kinase; Provisional; Region: PRK05443 980514005676 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 980514005677 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 980514005678 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 980514005679 putative active site [active] 980514005680 catalytic site [active] 980514005681 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 980514005682 putative domain interface [polypeptide binding]; other site 980514005683 putative active site [active] 980514005684 catalytic site [active] 980514005685 pyrroloquinoline quinone biosynthesis protein PqqB; Provisional; Region: PRK05184 980514005686 coenzyme PQQ biosynthesis protein B; Region: PQQ_syn_pqqB; TIGR02108 980514005687 pyrroloquinoline quinone biosynthesis protein PqqC; Provisional; Region: PRK05157 980514005688 pyrroloquinoline quinone biosynthesis protein PqqD; Provisional; Region: PRK02079 980514005689 pyrroloquinoline quinone biosynthesis protein PqqE; Provisional; Region: PRK05301 980514005690 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 980514005691 FeS/SAM binding site; other site 980514005692 radical SAM additional 4Fe4S-binding SPASM domain; Region: rSAM_more_4Fe4S; TIGR04085 980514005693 Zn-dependent dipeptidase, microsomal dipeptidase homolog [Amino acid transport and metabolism]; Region: COG2355 980514005694 renal dipeptidase (rDP), best studied in mammals and also called membrane or microsomal dipeptidase, is a membrane-bound glycoprotein hydrolyzing dipeptides and is involved in hydrolytic metabolism of penem and carbapenem beta-lactam antibiotics; Region: rDP_like; cd01301 980514005695 active site 980514005696 dimer interface [polypeptide binding]; other site 980514005697 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 980514005698 putative active site [active] 980514005699 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 980514005700 PLD-like domain; Region: PLDc_2; pfam13091 980514005701 putative active site [active] 980514005702 catalytic site [active] 980514005703 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 980514005704 PLD-like domain; Region: PLDc_2; pfam13091 980514005705 putative active site [active] 980514005706 catalytic site [active] 980514005707 Catalase-like heme-binding proteins similar to the uncharacterized y4iL; Region: y4iL_like; cd08152 980514005708 putative heme binding pocket [chemical binding]; other site 980514005709 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 980514005710 S-(hydroxymethyl)glutathione dehydrogenase/class III alcohol dehydrogenase; Region: adh_III_F_hyde; TIGR02818 980514005711 substrate binding site [chemical binding]; other site 980514005712 catalytic Zn binding site [ion binding]; other site 980514005713 NAD binding site [chemical binding]; other site 980514005714 structural Zn binding site [ion binding]; other site 980514005715 dimer interface [polypeptide binding]; other site 980514005716 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 980514005717 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 980514005718 PapC N-terminal domain; Region: PapC_N; pfam13954 980514005719 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 980514005720 PapC C-terminal domain; Region: PapC_C; pfam13953 980514005721 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 980514005722 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 980514005723 Gram-negative pili assembly chaperone, C-terminal domain; Region: Pili_assembly_C; pfam02753 980514005724 P pilus assembly protein, pilin FimA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimA; COG3539 980514005725 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 980514005726 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 980514005727 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 980514005728 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 980514005729 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 980514005730 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 980514005731 Flavin containing amine oxidoreductase; Region: Amino_oxidase; pfam01593 980514005732 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 980514005733 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 980514005734 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 980514005735 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 980514005736 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 980514005737 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 980514005738 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 980514005739 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 980514005740 Protein export membrane protein; Region: SecD_SecF; cl14618 980514005741 Protein export membrane protein; Region: SecD_SecF; cl14618 980514005742 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 980514005743 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 980514005744 HlyD family secretion protein; Region: HlyD_3; pfam13437 980514005745 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 980514005746 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 980514005747 active site 980514005748 phosphorylation site [posttranslational modification] 980514005749 intermolecular recognition site; other site 980514005750 dimerization interface [polypeptide binding]; other site 980514005751 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 980514005752 DNA binding site [nucleotide binding] 980514005753 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 980514005754 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 980514005755 dimerization interface [polypeptide binding]; other site 980514005756 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 980514005757 dimer interface [polypeptide binding]; other site 980514005758 phosphorylation site [posttranslational modification] 980514005759 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 980514005760 ATP binding site [chemical binding]; other site 980514005761 Mg2+ binding site [ion binding]; other site 980514005762 G-X-G motif; other site 980514005763 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 980514005764 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; cl17220 980514005765 dimerization interface [polypeptide binding]; other site 980514005766 putative DNA binding site [nucleotide binding]; other site 980514005767 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 980514005768 putative Zn2+ binding site [ion binding]; other site 980514005769 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 980514005770 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 980514005771 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 980514005772 classical (c) SDRs; Region: SDR_c; cd05233 980514005773 NAD(P) binding site [chemical binding]; other site 980514005774 active site 980514005775 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 980514005776 classical (c) SDRs; Region: SDR_c; cd05233 980514005777 NAD(P) binding site [chemical binding]; other site 980514005778 active site 980514005779 PAAR motif; Region: PAAR_motif; pfam05488 980514005780 Phage antirepressor protein KilAC domain; Region: ANT; pfam03374 980514005781 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 980514005782 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 980514005783 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 980514005784 non-specific DNA binding site [nucleotide binding]; other site 980514005785 salt bridge; other site 980514005786 sequence-specific DNA binding site [nucleotide binding]; other site 980514005787 HD domain; Region: HD_4; pfam13328 980514005788 Survival protein SurE; Region: SurE; pfam01975 980514005789 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 980514005790 GH3 auxin-responsive promoter; Region: GH3; pfam03321 980514005791 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 980514005792 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 980514005793 putative substrate translocation pore; other site 980514005794 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 980514005795 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 980514005796 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 980514005797 HlyD family secretion protein; Region: HlyD_3; pfam13437 980514005798 indole acetimide hydrolase; Validated; Region: PRK07488 980514005799 Amidase; Region: Amidase; pfam01425 980514005800 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 980514005801 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 980514005802 DNA binding residues [nucleotide binding] 980514005803 dimerization interface [polypeptide binding]; other site 980514005804 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; cl00246 980514005805 FAD binding site [chemical binding]; other site 980514005806 Methylene-tetrahydrofolate reductase C terminal; Region: MTHFR_C; pfam12225 980514005807 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 980514005808 nudix motif; other site 980514005809 Uncharacterized conserved protein [General function prediction only]; Region: COG4111 980514005810 putative nicotinate phosphoribosyltransferase; Provisional; Region: PRK09198 980514005811 pre-B-cell colony-enhancing factor (PBEF)-like. The mammalian members of this group of nicotinate phosphoribosyltransferases (NAPRTases) were originally identified as genes whose expression is upregulated upon activation in lymphoid cells. In general; Region: PBEF_like; cd01569 980514005812 active site 980514005813 Phosphoribosylpyrophosphate synthetase [Nucleotide transport and metabolism / Amino acid transport and metabolism]; Region: PrsA; COG0462 980514005814 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 980514005815 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 980514005816 active site 980514005817 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 980514005818 Cupin domain; Region: Cupin_2; cl17218 980514005819 Helix-turn-helix domain; Region: HTH_18; pfam12833 980514005820 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 980514005821 Coenzyme A binding pocket [chemical binding]; other site 980514005822 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 980514005823 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 980514005824 Walker A/P-loop; other site 980514005825 ATP binding site [chemical binding]; other site 980514005826 Q-loop/lid; other site 980514005827 ABC transporter signature motif; other site 980514005828 Walker B; other site 980514005829 D-loop; other site 980514005830 H-loop/switch region; other site 980514005831 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 980514005832 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 980514005833 ABC-ATPase subunit interface; other site 980514005834 dimer interface [polypeptide binding]; other site 980514005835 putative PBP binding regions; other site 980514005836 ABC-type Fe3+-hydroxamate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: FepB; COG0614 980514005837 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 980514005838 intersubunit interface [polypeptide binding]; other site 980514005839 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 980514005840 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 980514005841 putative NAD(P) binding site [chemical binding]; other site 980514005842 putative substrate binding site [chemical binding]; other site 980514005843 catalytic Zn binding site [ion binding]; other site 980514005844 structural Zn binding site [ion binding]; other site 980514005845 dimer interface [polypeptide binding]; other site 980514005846 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 980514005847 Uncharacterized homolog of gamma-carboxymuconolactone decarboxylase subunit [Function unknown]; Region: COG0599 980514005848 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 980514005849 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 980514005850 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 980514005851 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 980514005852 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 980514005853 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 980514005854 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 980514005855 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 980514005856 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 980514005857 putative substrate translocation pore; other site 980514005858 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 980514005859 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 980514005860 NAD(P) binding site [chemical binding]; other site 980514005861 active site 980514005862 Transcriptional regulator [Transcription]; Region: LysR; COG0583 980514005863 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514005864 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 980514005865 putative dimerization interface [polypeptide binding]; other site 980514005866 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 980514005867 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 980514005868 dihydroxy-acid dehydratase; Provisional; Region: PRK13017 980514005869 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 980514005870 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 980514005871 dimer interface [polypeptide binding]; other site 980514005872 NADP binding site [chemical binding]; other site 980514005873 catalytic residues [active] 980514005874 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 980514005875 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 980514005876 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 980514005877 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 980514005878 putative substrate translocation pore; other site 980514005879 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 980514005880 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 980514005881 HlyD family secretion protein; Region: HlyD_3; pfam13437 980514005882 potential frameshift: common BLAST hit: gi|384132312|ref|YP_005514924.1| RTX toxin 980514005883 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 980514005884 Antitoxin of toxin-antitoxin stability system N-terminal; Region: RelB_N; pfam12910 980514005885 hypothetical protein; Validated; Region: PRK06201 980514005886 Demethylmenaquinone methyltransferase [Coenzyme metabolism]; Region: MenG; COG0684 980514005887 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 980514005888 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 980514005889 ligand binding site [chemical binding]; other site 980514005890 NAD binding site [chemical binding]; other site 980514005891 dimerization interface [polypeptide binding]; other site 980514005892 catalytic site [active] 980514005893 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 980514005894 Major Facilitator Superfamily; Region: MFS_1; pfam07690 980514005895 putative substrate translocation pore; other site 980514005896 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 980514005897 Transcriptional regulator [Transcription]; Region: IclR; COG1414 980514005898 Bacterial transcriptional regulator; Region: IclR; pfam01614 980514005899 Protein of unknown function, DUF606; Region: DUF606; pfam04657 980514005900 Protein of unknown function, DUF606; Region: DUF606; pfam04657 980514005901 Transcriptional regulator [Transcription]; Region: LysR; COG0583 980514005902 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514005903 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 980514005904 putative effector binding pocket; other site 980514005905 dimerization interface [polypeptide binding]; other site 980514005906 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 980514005907 putative substrate translocation pore; other site 980514005908 Major Facilitator Superfamily; Region: MFS_1; pfam07690 980514005909 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 980514005910 WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from...; Region: WD40; cl02567 980514005911 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 980514005912 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 980514005913 DNA-binding site [nucleotide binding]; DNA binding site 980514005914 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 980514005915 Dicarboxylate carrier protein MatC N-terminus; Region: MatC_N; pfam07158 980514005916 Di- and tricarboxylate transporters [Inorganic ion transport and metabolism]; Region: CitT; COG0471 980514005917 Anion permease ArsB/NhaD. These permeases have been shown to translocate sodium, arsenate, antimonite, sulfate and organic anions across biological membranes in all three kingdoms of life. A typical anion permease contains 8-13 transmembrane helices...; Region: ArsB_NhaD_permease; cl17221 980514005918 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 980514005919 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 980514005920 active site 980514005921 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 980514005922 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 980514005923 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 980514005924 Possible hemagglutinin (DUF637); Region: DUF637; pfam04830 980514005925 Pre-toxin domain with VENN motif; Region: PT-VENN; pfam04829 980514005926 MafB19-like deaminase; Region: MafB19-deam; pfam14437 980514005927 Hemolysin activation/secretion protein [Intracellular trafficking and secretion]; Region: FhaC; COG2831 980514005928 POTRA domain, ShlB-type; Region: POTRA_2; pfam08479 980514005929 Haemolysin secretion/activation protein ShlB/FhaC/HecB; Region: ShlB; pfam03865 980514005930 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 980514005931 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 980514005932 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like2; cd05667 980514005933 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 980514005934 metal binding site [ion binding]; metal-binding site 980514005935 putative dimer interface [polypeptide binding]; other site 980514005936 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 980514005937 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 980514005938 Kef-type K+ transport systems, predicted NAD-binding component [Inorganic ion transport and metabolism]; Region: Kch; COG1226 980514005939 TrkA-N domain; Region: TrkA_N; pfam02254 980514005940 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 980514005941 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 980514005942 LysR family transcriptional regulator; Provisional; Region: PRK14997 980514005943 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514005944 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 980514005945 putative effector binding pocket; other site 980514005946 putative dimerization interface [polypeptide binding]; other site 980514005947 Isochorismatase family; Region: Isochorismatase; pfam00857 980514005948 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 980514005949 catalytic triad [active] 980514005950 dimer interface [polypeptide binding]; other site 980514005951 conserved cis-peptide bond; other site 980514005952 Uncharacterized conserved protein [Function unknown]; Region: COG1359 980514005953 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 980514005954 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 980514005955 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 980514005956 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 980514005957 Transcriptional regulator; Region: Rrf2; pfam02082 980514005958 Predicted transcriptional regulator [Transcription]; Region: COG1959 980514005959 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 980514005960 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 980514005961 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 980514005962 potential catalytic triad [active] 980514005963 conserved cys residue [active] 980514005964 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 980514005965 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 980514005966 DNA binding residues [nucleotide binding] 980514005967 RibD C-terminal domain; Region: RibD_C; cl17279 980514005968 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 980514005969 Uncharacterized conserved protein [Function unknown]; Region: COG3268 980514005970 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 980514005971 NAD(P) binding site [chemical binding]; other site 980514005972 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 980514005973 Old yellow enzyme (OYE)-related FMN binding domain, group 2. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a reducing agent with oxygens, quinones, and alpha,beta-unsaturated aldehydes and ketones, and can act as...; Region: OYE_like_2_FMN; cd04733 980514005974 putative active site [active] 980514005975 putative FMN binding site [chemical binding]; other site 980514005976 putative substrate binding site [chemical binding]; other site 980514005977 putative catalytic residue [active] 980514005978 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 980514005979 MarR family; Region: MarR; pfam01047 980514005980 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 980514005981 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 980514005982 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 980514005983 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 980514005984 potential catalytic triad [active] 980514005985 conserved cys residue [active] 980514005986 2-oxoglutarate dehydrogenase E2 component; Region: PLN02226 980514005987 Catalase [Inorganic ion transport and metabolism]; Region: KatE; COG0753 980514005988 Clade 3 of the heme-binding enzyme catalase; Region: catalase_clade_3; cd08156 980514005989 tetramer interface [polypeptide binding]; other site 980514005990 heme binding pocket [chemical binding]; other site 980514005991 NADPH binding site [chemical binding]; other site 980514005992 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 980514005993 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 980514005994 Acetoacetate decarboxylase (ADC); Region: ADC; cl01919 980514005995 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 980514005996 Coniferyl aldehyde dehydrogenase-like; Region: ALDH_CALDH_CalB; cd07133 980514005997 NAD(P) binding site [chemical binding]; other site 980514005998 catalytic residues [active] 980514005999 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 980514006000 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 980514006001 NAD(P) binding site [chemical binding]; other site 980514006002 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 980514006003 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 980514006004 Na binding site [ion binding]; other site 980514006005 Protein of unknown function, DUF485; Region: DUF485; pfam04341 980514006006 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 980514006007 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 980514006008 acyl-activating enzyme (AAE) consensus motif; other site 980514006009 AMP binding site [chemical binding]; other site 980514006010 active site 980514006011 CoA binding site [chemical binding]; other site 980514006012 Propionate catabolism activator; Region: PrpR_N; pfam06506 980514006013 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 980514006014 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 980514006015 Walker A motif; other site 980514006016 ATP binding site [chemical binding]; other site 980514006017 Walker B motif; other site 980514006018 arginine finger; other site 980514006019 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 980514006020 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 980514006021 classical (c) SDRs; Region: SDR_c; cd05233 980514006022 NAD(P) binding site [chemical binding]; other site 980514006023 active site 980514006024 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 980514006025 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 980514006026 active site 980514006027 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 980514006028 catalytic core [active] 980514006029 Phosphotransferase enzyme family; Region: APH; pfam01636 980514006030 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 980514006031 putative active site [active] 980514006032 putative substrate binding site [chemical binding]; other site 980514006033 ATP binding site [chemical binding]; other site 980514006034 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 980514006035 NADP binding site [chemical binding]; other site 980514006036 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 980514006037 dimer interface [polypeptide binding]; other site 980514006038 catalytic residues [active] 980514006039 Uncharacterized protein conserved in bacteria [Function unknown]; Region: GguC; COG3802 980514006040 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 980514006041 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 980514006042 4-hydroxyphenylacetate permease; Region: HpaX; TIGR02332 980514006043 putative substrate translocation pore; other site 980514006044 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 980514006045 dihydroxy-acid dehydratase; Validated; Region: PRK06131 980514006046 Transcriptional regulators [Transcription]; Region: FadR; COG2186 980514006047 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 980514006048 DNA-binding site [nucleotide binding]; DNA binding site 980514006049 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 980514006050 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; pfam09694 980514006051 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 980514006052 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514006053 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 980514006054 dimerization interface [polypeptide binding]; other site 980514006055 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 980514006056 Muconate Lactonizing Enzyme (MLE), an homooctameric enzyme, catalyses the conversion of cis,cis-muconate (CCM) to muconolactone (ML) in the catechol branch of the beta-ketoadipate pathway. This pathway is used in soil microbes to breakdown lignin-derived...; Region: MLE; cd03318 980514006057 octamer interface [polypeptide binding]; other site 980514006058 active site 980514006059 muconolactone delta-isomerase; Region: muco_delta; TIGR03221 980514006060 catechol 1,2-dioxygenase, proteobacterial; Region: catechol_proteo; TIGR02439 980514006061 Catechol 1,2 dioxygenase (1,2-CTD) catalyzes an intradiol cleavage reaction of catechol to form cis,cis-muconate. 1,2-CTDs is homodimers with one catalytic non-heme ferric ion per monomer. They belong to the aromatic dioxygenase family, a family of...; Region: 1,2-CTD; cd03460 980514006062 dimer interface [polypeptide binding]; other site 980514006063 active site 980514006064 3-oxoacid CoA-transferase, A subunit; Region: pcaI_scoA_fam; TIGR02429 980514006065 Coenzyme A transferase; Region: CoA_trans; cl17247 980514006066 Coenzyme A transferase; Region: CoA_trans; cl17247 980514006067 potential frameshift: common BLAST hit: gi|384143388|ref|YP_005526098.1| Acetyl-CoA acetyltransferase 980514006068 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 980514006069 active site 980514006070 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 980514006071 active site 980514006072 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 980514006073 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 980514006074 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 980514006075 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 980514006076 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 980514006077 active site 980514006078 Escherichia coli NAD+-dependent phenylacetaldehyde dehydrogenase PadA-like; Region: ALDH_PADH_NahF; cd07113 980514006079 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 980514006080 NAD(P) binding site [chemical binding]; other site 980514006081 catalytic residues [active] 980514006082 tyramine oxidase; Provisional; Region: tynA; PRK14696 980514006083 Copper amine oxidase N-terminal domain; Region: Cu_amine_oxidN1; pfam07833 980514006084 Copper amine oxidase, N3 domain; Region: Cu_amine_oxidN3; pfam02728 980514006085 Copper amine oxidase, enzyme domain; Region: Cu_amine_oxid; pfam01179 980514006086 DNA-binding transcriptional activator FeaR; Provisional; Region: PRK09685 980514006087 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 980514006088 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 980514006089 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 980514006090 Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur; Region: PDR_like; cd06185 980514006091 FMN-binding pocket [chemical binding]; other site 980514006092 flavin binding motif; other site 980514006093 phosphate binding motif [ion binding]; other site 980514006094 beta-alpha-beta structure motif; other site 980514006095 NAD binding pocket [chemical binding]; other site 980514006096 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 980514006097 catalytic loop [active] 980514006098 iron binding site [ion binding]; other site 980514006099 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 980514006100 classical (c) SDRs; Region: SDR_c; cd05233 980514006101 NAD(P) binding site [chemical binding]; other site 980514006102 active site 980514006103 Nuclear transport factor 2 (NTF2-like) superfamily. This family includes members of the NTF2 family, Delta-5-3-ketosteroid isomerases, Scytalone Dehydratases, and the beta subunit of Ring hydroxylating dioxygenases. This family is a classic example of...; Region: NTF2_like; cl09109 980514006104 benzoate 1,2-dioxygenase, large subunit; Region: benzo_1_2_benA; TIGR03229 980514006105 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 980514006106 [2Fe-2S] cluster binding site [ion binding]; other site 980514006107 C-terminal catalytic domain of the oxygenase alpha subunit of Pseudomonas resinovorans strain CA10 anthranilate 1,2-dioxygenase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_AntDO-like; cd08879 980514006108 putative alpha subunit interface [polypeptide binding]; other site 980514006109 putative active site [active] 980514006110 putative substrate binding site [chemical binding]; other site 980514006111 Fe binding site [ion binding]; other site 980514006112 SnoaL-like domain; Region: SnoaL_4; pfam13577 980514006113 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 980514006114 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 980514006115 active site 980514006116 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 980514006117 Amidase; Region: Amidase; cl11426 980514006118 Transcriptional regulators [Transcription]; Region: MarR; COG1846 980514006119 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 980514006120 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 980514006121 Major Facilitator Superfamily; Region: MFS_1; pfam07690 980514006122 putative substrate translocation pore; other site 980514006123 outer membrane porin, OprD family; Region: OprD; pfam03573 980514006124 short chain dehydrogenase; Provisional; Region: PRK08251 980514006125 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 980514006126 NAD(P) binding site [chemical binding]; other site 980514006127 active site 980514006128 Histidine phosphatase domain found in a functionally diverse set of proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP; cd07040 980514006129 catalytic core [active] 980514006130 thiamine kinase; Region: ycfN_thiK; TIGR02721 980514006131 Acyl-CoA dehydrogenase (ACAD) 10 and 11, N-terminal domain, and similar proteins. This subfamily is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs); Region: ACAD10_11_like; cd05154 980514006132 putative active site [active] 980514006133 putative substrate binding site [chemical binding]; other site 980514006134 ATP binding site [chemical binding]; other site 980514006135 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 980514006136 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 980514006137 active site 980514006138 Transcriptional regulator [Transcription]; Region: LysR; COG0583 980514006139 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514006140 The C-terminal substrate binding domain of LysR-type transcriptional regulators that involved in the catabolism of nitroaromatic/naphthalene compounds and that of related regulators; contains the type 2 periplasmic binding fold; Region: PBP2_Nitroaromatics_like; cd08417 980514006141 substrate binding pocket [chemical binding]; other site 980514006142 dimerization interface [polypeptide binding]; other site 980514006143 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 980514006144 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 980514006145 Bacterial transcriptional regulator; Region: IclR; pfam01614 980514006146 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 980514006147 Predicted transporter component [General function prediction only]; Region: COG2391 980514006148 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 980514006149 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 980514006150 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 980514006151 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 980514006152 Trp docking motif [polypeptide binding]; other site 980514006153 putative active site [active] 980514006154 Carbohydrate-selective porin, OprB family; Region: OprB; pfam04966 980514006155 Right handed beta helix region; Region: Beta_helix; pfam13229 980514006156 Type I 3-dehydroquinase, (3-dehydroquinate dehydratase or DHQase); Region: DHQase_I; cd00502 980514006157 3-dehydroquinate dehydratase [Amino acid transport and metabolism]; Region: AroD; COG0710 980514006158 active site 980514006159 catalytic residue [active] 980514006160 dimer interface [polypeptide binding]; other site 980514006161 Protocatechuate 3,4-dioxygenase beta subunit [Secondary metabolites biosynthesis, transport, and catabolism]; Region: PcaH; COG3485 980514006162 Protocatechuate 3,4-dioxygenase (3,4-PCD) , alpha subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_alpha; cd03463 980514006163 heterodimer interface [polypeptide binding]; other site 980514006164 active site 980514006165 Protocatechuate 3,4-dioxygenase (3,4-PCD) , beta subunit. 3,4-PCD catalyzes the oxidative ring cleavage of 3,4-dihydroxybenzoate to produce beta-carboxy-cis,cis-muconate. 3,4-PCDs are large aggregates of 12 protomers, each composed of an alpha- and...; Region: 3,4-PCD_beta; cd03464 980514006166 heterodimer interface [polypeptide binding]; other site 980514006167 multimer interface [polypeptide binding]; other site 980514006168 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 980514006169 active site 980514006170 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 980514006171 benzoate transport; Region: 2A0115; TIGR00895 980514006172 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 980514006173 putative substrate translocation pore; other site 980514006174 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 980514006175 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 980514006176 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 980514006177 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 980514006178 tetramer interface [polypeptide binding]; other site 980514006179 active site 980514006180 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 980514006181 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 980514006182 dimer interface [polypeptide binding]; other site 980514006183 active site 980514006184 Coenzyme A transferase; Region: CoA_trans; cl17247 980514006185 Coenzyme A transferase; Region: CoA_trans; cl17247 980514006186 Coenzyme A transferase; Region: CoA_trans; cl17247 980514006187 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 980514006188 substrate binding site; other site 980514006189 dimer interface; other site 980514006190 Septum formation initiator; Region: DivIC; cl17659 980514006191 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 980514006192 Predicted membrane protein [Function unknown]; Region: COG2323 980514006193 enolase; Provisional; Region: eno; PRK00077 980514006194 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 980514006195 dimer interface [polypeptide binding]; other site 980514006196 metal binding site [ion binding]; metal-binding site 980514006197 substrate binding pocket [chemical binding]; other site 980514006198 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 980514006199 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 980514006200 CTP synthetase; Validated; Region: pyrG; PRK05380 980514006201 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 980514006202 Catalytic site [active] 980514006203 active site 980514006204 UTP binding site [chemical binding]; other site 980514006205 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 980514006206 active site 980514006207 putative oxyanion hole; other site 980514006208 catalytic triad [active] 980514006209 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 980514006210 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 980514006211 Predicted hydrolase of the alpha/beta-hydrolase fold [General function prediction only]; Region: COG0429 980514006212 SGNH_hydrolase subfamily, FeeA, FeeB and similar esterases/lipases. FeeA and FeeB are part of a biosynthetic gene cluster and may participate in the biosynthesis of long-chain N-acyltyrosines by providing saturated and unsaturated fatty acids, which it...; Region: FeeA_FeeB_like; cd01836 980514006213 active site 980514006214 catalytic triad [active] 980514006215 oxyanion hole [active] 980514006216 SnoaL-like domain; Region: SnoaL_2; pfam12680 980514006217 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 980514006218 2,4-dienoyl-CoA reductase (DCR) FMN-binding domain. DCR in E. coli is an iron-sulfur flavoenzyme which contains FMN, FAD, and a 4Fe-4S cluster. It is also a monomer, unlike that of its eukaryotic counterparts which form homotetramers and lack the...; Region: DCR_FMN; cd02930 980514006219 active site 980514006220 FMN binding site [chemical binding]; other site 980514006221 2,4-decadienoyl-CoA binding site; other site 980514006222 catalytic residue [active] 980514006223 4Fe-4S cluster binding site [ion binding]; other site 980514006224 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 980514006225 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 980514006226 Predicted transcriptional regulators [Transcription]; Region: COG1695 980514006227 Transcriptional regulator PadR-like family; Region: PadR; cl17335 980514006228 Virulence activator alpha C-term; Region: Vir_act_alpha_C; pfam10400 980514006229 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 980514006230 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 980514006231 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 980514006232 hypothetical protein; Provisional; Region: PRK02237 980514006233 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 980514006234 Clp amino terminal domain; Region: Clp_N; pfam02861 980514006235 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 980514006236 Walker A motif; other site 980514006237 ATP binding site [chemical binding]; other site 980514006238 Walker B motif; other site 980514006239 arginine finger; other site 980514006240 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 980514006241 Walker A motif; other site 980514006242 ATP binding site [chemical binding]; other site 980514006243 Walker B motif; other site 980514006244 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 980514006245 Uncharacterized conserved protein [Function unknown]; Region: COG2127 980514006246 Membrane-anchored protein predicted to be involved in regulation of amylopullulanase [Carbohydrate transport and metabolism]; Region: COG4945 980514006247 N-acetyl-gamma-glutamyl-phosphate reductase; Validated; Region: argC; PRK00436 980514006248 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 980514006249 Protein of unknown function DUF45; Region: DUF45; pfam01863 980514006250 RPI_A: Ribose 5-phosphate isomerase type A (RPI_A) subfamily; RPI catalyzes the reversible conversion of ribose-5-phosphate to ribulose 5-phosphate, the first step of the non-oxidative branch of the pentose phosphate pathway. This reaction leads to the...; Region: RPI_A; cd01398 980514006251 tetramer (dimer of dimers) interface [polypeptide binding]; other site 980514006252 active site 980514006253 dimer interface [polypeptide binding]; other site 980514006254 threonine dehydratase; Reviewed; Region: PRK09224 980514006255 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 980514006256 tetramer interface [polypeptide binding]; other site 980514006257 pyridoxal 5'-phosphate binding site [chemical binding]; other site 980514006258 catalytic residue [active] 980514006259 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 980514006260 putative Ile/Val binding site [chemical binding]; other site 980514006261 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 980514006262 putative Ile/Val binding site [chemical binding]; other site 980514006263 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 980514006264 TrkA-N domain; Region: TrkA_N; pfam02254 980514006265 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 980514006266 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 980514006267 The outer membrane phospholipase A (OMPLA) is an integral membrane enzyme that catalyses the hydrolysis of acylester bonds in phospholipids using calcium as a cofactor. The enzyme has a fold of transmembrane beta-barrels and is widespread among...; Region: OMPLA; cd00541 980514006268 dimerization interface [polypeptide binding]; other site 980514006269 substrate binding site [chemical binding]; other site 980514006270 active site 980514006271 calcium binding site [ion binding]; other site 980514006272 Predicted Zn-dependent peptidases, insulinase-like [General function prediction only]; Region: COG1026 980514006273 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 980514006274 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 980514006275 Peptidase M16C associated; Region: M16C_assoc; pfam08367 980514006276 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 980514006277 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 980514006278 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 980514006279 N-terminal plug; other site 980514006280 ligand-binding site [chemical binding]; other site 980514006281 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 980514006282 Adenosine kinase (AK) catalyzes the phosphorylation of ribofuranosyl-containing nucleoside analogues at the 5'-hydroxyl using ATP or GTP as the phosphate donor.The physiological function of AK is associated with the regulation of extracellular...; Region: adenosine_kinase; cd01168 980514006283 substrate binding site [chemical binding]; other site 980514006284 ATP binding site [chemical binding]; other site 980514006285 Rieske domain; a [2Fe-2S] cluster binding domain commonly found in Rieske non-heme iron oxygenase (RO) systems such as naphthalene and biphenyl dioxygenases, as well as in plant/cyanobacterial chloroplast b6f and mitochondrial cytochrome bc(1) complexes; Region: Rieske; cd03467 980514006286 iron-sulfur cluster [ion binding]; other site 980514006287 [2Fe-2S] cluster binding site [ion binding]; other site 980514006288 Protein of unknown function (DUF1449); Region: DUF1449; pfam07290 980514006289 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 980514006290 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; cl00562 980514006291 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 980514006292 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 980514006293 Cyd operon protein YbgE (Cyd_oper_YbgE); Region: Cyd_oper_YbgE; pfam09600 980514006294 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 980514006295 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 980514006296 Coenzyme A binding pocket [chemical binding]; other site 980514006297 Uncharacterized protein conserved in bacteria (DUF2057); Region: DUF2057; pfam09829 980514006298 Nitroreductase-like family 4. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_4; cd02140 980514006299 dimer interface [polypeptide binding]; other site 980514006300 FMN binding site [chemical binding]; other site 980514006301 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 980514006302 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 980514006303 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 980514006304 P loop; other site 980514006305 GTP binding site [chemical binding]; other site 980514006306 Protein of unknown function (DUF2750); Region: DUF2750; pfam11042 980514006307 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair_10; cd04623 980514006308 FOG: CBS domain [General function prediction only]; Region: COG0517 980514006309 acetylornithine aminotransferase; Provisional; Region: PRK02627 980514006310 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 980514006311 inhibitor-cofactor binding pocket; inhibition site 980514006312 pyridoxal 5'-phosphate binding site [chemical binding]; other site 980514006313 catalytic residue [active] 980514006314 Glutaredoxin (GRX) family, PKC-interacting cousin of TRX (PICOT)-like subfamily; composed of PICOT and GRX-PICOT-like proteins. The non-PICOT members of this family contain only the GRX-like domain, whereas PICOT contains an N-terminal TRX-like domain...; Region: GRX_PICOT_like; cd03028 980514006315 putative GSH binding site [chemical binding]; other site 980514006316 catalytic residues [active] 980514006317 LysR family transcriptional regulator; Provisional; Region: PRK14997 980514006318 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514006319 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_4; cd08473 980514006320 putative effector binding pocket; other site 980514006321 putative dimerization interface [polypeptide binding]; other site 980514006322 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 980514006323 active site 980514006324 Branched-chain amino acid transport protein; Region: Branch_AA_trans; cl00547 980514006325 Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]; Region: GlcG; COG3193 980514006326 Predicted alpha/beta hydrolase [General function prediction only]; Region: COG4757 980514006327 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 980514006328 bifunctional PTS system fructose-specific transporter subunit IIA/HPr protein; Provisional; Region: PRK11109 980514006329 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cd00211 980514006330 active site 980514006331 phosphorylation site [posttranslational modification] 980514006332 PTS_IIA, PTS system, fructose/mannitol specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This...; Region: PTS_IIA_fru; cl00163 980514006333 Histidine-containing phosphocarrier protein (HPr)-like proteins. HPr is a central component of the bacterial phosphoenolpyruvate sugar phosphotransferase system (PTS). The PTS catalyses the phosphorylation of sugar substrates during their translocation...; Region: PTS-HPr_like; cd00367 980514006334 dimerization domain swap beta strand [polypeptide binding]; other site 980514006335 regulatory protein interface [polypeptide binding]; other site 980514006336 active site 980514006337 regulatory phosphorylation site [posttranslational modification]; other site 980514006338 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 980514006339 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 980514006340 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 980514006341 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 980514006342 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 980514006343 1-phosphofructokinase (FruK), minor 6-phosphofructokinase (pfkB) and related sugar kinases. FruK plays an important role in the predominant pathway for fructose utilisation.This group also contains tagatose-6-phophate kinase, an enzyme of the tagatose...; Region: FruK_PfkB_like; cd01164 980514006344 putative substrate binding site [chemical binding]; other site 980514006345 putative ATP binding site [chemical binding]; other site 980514006346 PTS system fructose-specific transporter subunits IIBC; Provisional; Region: PRK10712 980514006347 PTS_IIB_fructose: subunit IIB of enzyme II (EII) of the fructose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In this system, EII (also referred to as FruAB) is a fructose-specific permease made up of two proteins (FruA and...; Region: PTS_IIB_fructose; cd05569 980514006348 active site 980514006349 P-loop; other site 980514006350 phosphorylation site [posttranslational modification] 980514006351 Phosphotransferase system, fructose-specific IIC component [Carbohydrate transport and metabolism]; Region: FruA; cl17425 980514006352 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 980514006353 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 980514006354 putative DNA binding site [nucleotide binding]; other site 980514006355 putative Zn2+ binding site [ion binding]; other site 980514006356 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 980514006357 PAS domain; Region: PAS_9; pfam13426 980514006358 putative active site [active] 980514006359 heme pocket [chemical binding]; other site 980514006360 PAS fold; Region: PAS_4; pfam08448 980514006361 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 980514006362 putative active site [active] 980514006363 heme pocket [chemical binding]; other site 980514006364 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 980514006365 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 980514006366 metal binding site [ion binding]; metal-binding site 980514006367 active site 980514006368 I-site; other site 980514006369 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 980514006370 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 980514006371 Ligand Binding Site [chemical binding]; other site 980514006372 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 980514006373 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 980514006374 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 980514006375 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 980514006376 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 980514006377 Sulfate transporter family; Region: Sulfate_transp; pfam00916 980514006378 Sulphate Transporter and Anti-Sigma factor antagonist domain of SulP-like sulfate transporters, plays a role in the function and regulation of the transport activity, proposed general NTP binding function; Region: STAS_SulP_like_sulfate_transporter; cd07042 980514006379 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 980514006380 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 980514006381 Peptidase S8 family domain in ProteinaseK-like proteins; Region: Peptidases_S8_PCSK9_ProteinaseK_like; cd04077 980514006382 calcium binding site 2 [ion binding]; other site 980514006383 active site 980514006384 catalytic triad [active] 980514006385 calcium binding site 1 [ion binding]; other site 980514006386 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 980514006387 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 980514006388 Kynureninase [Amino acid transport and metabolism]; Region: COG3844 980514006389 kynureninase; Region: kynureninase; TIGR01814 980514006390 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 980514006391 catalytic residue [active] 980514006392 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 980514006393 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 980514006394 putative DNA binding site [nucleotide binding]; other site 980514006395 putative Zn2+ binding site [ion binding]; other site 980514006396 AsnC family; Region: AsnC_trans_reg; pfam01037 980514006397 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 980514006398 Acetyltransferase (GNAT) family; Region: Acetyltransf_1; pfam00583 980514006399 Fels-1 Prophage Protein-like; Region: Fels1; pfam05666 980514006400 Fels-1 Prophage Protein-like; Region: Fels1; pfam05666 980514006401 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 980514006402 Haloacid dehalogenase-like hydrolase; Region: HAD_2; pfam13419 980514006403 motif II; other site 980514006404 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 980514006405 RNA binding surface [nucleotide binding]; other site 980514006406 recombinase A; Provisional; Region: recA; PRK09354 980514006407 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 980514006408 hexamer interface [polypeptide binding]; other site 980514006409 Walker A motif; other site 980514006410 ATP binding site [chemical binding]; other site 980514006411 Walker B motif; other site 980514006412 recombination regulator RecX; Reviewed; Region: recX; PRK00117 980514006413 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 980514006414 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 980514006415 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 980514006416 active site 980514006417 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 980514006418 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 980514006419 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 980514006420 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 980514006421 trimer interface [polypeptide binding]; other site 980514006422 active site 980514006423 UDP-GlcNAc binding site [chemical binding]; other site 980514006424 lipid binding site [chemical binding]; lipid-binding site 980514006425 Outer membrane protein (OmpH-like); Region: OmpH; pfam03938 980514006426 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 980514006427 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 980514006428 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 980514006429 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 980514006430 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 980514006431 Surface antigen; Region: Bac_surface_Ag; pfam01103 980514006432 zinc metallopeptidase RseP; Provisional; Region: PRK10779 980514006433 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 980514006434 active site 980514006435 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 980514006436 protein binding site [polypeptide binding]; other site 980514006437 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 980514006438 protein binding site [polypeptide binding]; other site 980514006439 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 980514006440 putative substrate binding region [chemical binding]; other site 980514006441 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 980514006442 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 980514006443 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 980514006444 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 980514006445 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 980514006446 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 980514006447 Cis (Z)-Isoprenyl Diphosphate Synthases (cis-IPPS); homodimers which catalyze the successive 1'-4 condensation of the isopentenyl diphosphate (IPP) molecule to trans,trans-farnesyl diphosphate (FPP) or to cis,trans-FPP to form long-chain polyprenyl...; Region: CIS_IPPS; cl00230 980514006448 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 980514006449 catalytic residue [active] 980514006450 putative FPP diphosphate binding site; other site 980514006451 putative FPP binding hydrophobic cleft; other site 980514006452 dimer interface [polypeptide binding]; other site 980514006453 putative IPP diphosphate binding site; other site 980514006454 ribosome recycling factor; Reviewed; Region: frr; PRK00083 980514006455 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 980514006456 hinge region; other site 980514006457 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 980514006458 putative nucleotide binding site [chemical binding]; other site 980514006459 uridine monophosphate binding site [chemical binding]; other site 980514006460 homohexameric interface [polypeptide binding]; other site 980514006461 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 980514006462 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 980514006463 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 980514006464 FeS/SAM binding site; other site 980514006465 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 980514006466 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 980514006467 putative active site [active] 980514006468 heme pocket [chemical binding]; other site 980514006469 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 980514006470 dimer interface [polypeptide binding]; other site 980514006471 phosphorylation site [posttranslational modification] 980514006472 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 980514006473 ATP binding site [chemical binding]; other site 980514006474 Mg2+ binding site [ion binding]; other site 980514006475 G-X-G motif; other site 980514006476 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 980514006477 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 980514006478 active site 980514006479 phosphorylation site [posttranslational modification] 980514006480 intermolecular recognition site; other site 980514006481 dimerization interface [polypeptide binding]; other site 980514006482 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 980514006483 Walker A motif; other site 980514006484 ATP binding site [chemical binding]; other site 980514006485 Walker B motif; other site 980514006486 arginine finger; other site 980514006487 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 980514006488 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 980514006489 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 980514006490 ornithine carbamoyltransferase; Provisional; Region: PRK00779 980514006491 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 980514006492 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 980514006493 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 980514006494 catalytic residues [active] 980514006495 active site 980514006496 MECDP_synthase (2-C-methyl-D-erythritol-2,4-cyclodiphosphate synthase), encoded by the ispF gene, catalyzes the formation of 2-C-methyl-D-erythritol 2,4-cyclodiphosphate (MEC) in the non-mevalonate deoxyxylulose (DOXP) pathway for isoprenoid biosynthesis; Region: MECDP_synthase; cd00554 980514006497 homotrimer interaction site [polypeptide binding]; other site 980514006498 zinc binding site [ion binding]; other site 980514006499 CDP-binding sites; other site 980514006500 D-amino acid dehydrogenase small subunit; Provisional; Region: PRK12409 980514006501 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 980514006502 hydroxyglutarate oxidase; Provisional; Region: PRK11728 980514006503 fumarate hydratase; Reviewed; Region: fumC; PRK00485 980514006504 Class II fumarases; Region: Fumarase_classII; cd01362 980514006505 active site 980514006506 tetramer interface [polypeptide binding]; other site 980514006507 UDP-glucose 4-epimerase [Cell envelope biogenesis, outer membrane]; Region: GalE; COG1087 980514006508 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 980514006509 NAD(P) binding site [chemical binding]; other site 980514006510 active site 980514006511 sulfur relay protein TusD/DsrE; Region: sulf_tusD_dsrE; TIGR03012 980514006512 Dissimilatory sulfite reductase (desulfoviridin), gamma subunit [Inorganic ion transport and metabolism]; Region: DsrC; COG2920 980514006513 DsrC like protein; Region: DsrC; pfam04358 980514006514 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 980514006515 EamA-like transporter family; Region: EamA; pfam00892 980514006516 EamA-like transporter family; Region: EamA; pfam00892 980514006517 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 980514006518 DNA-binding site [nucleotide binding]; DNA binding site 980514006519 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 980514006520 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 980514006521 pyridoxal 5'-phosphate binding site [chemical binding]; other site 980514006522 homodimer interface [polypeptide binding]; other site 980514006523 catalytic residue [active] 980514006524 Predicted transcriptional regulators [Transcription]; Region: COG1733 980514006525 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 980514006526 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 980514006527 MoeA family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF), an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoeA; cd00887 980514006528 dimer interface [polypeptide binding]; other site 980514006529 putative functional site; other site 980514006530 putative MPT binding site; other site 980514006531 bifunctional molybdenum cofactor biosynthesis protein MoaC/MogA; Provisional; Region: moaC; PRK03604 980514006532 MoaC family. Members of this family are involved in molybdenum cofactor (Moco) biosynthesis, an essential cofactor of a diverse group of redox enzymes. MoaC, a small hexameric protein, converts, together with MoaA, a guanosine derivative to the precursor...; Region: MoaC; cl00242 980514006533 trimer interface [polypeptide binding]; other site 980514006534 dimer interface [polypeptide binding]; other site 980514006535 putative active site [active] 980514006536 MogA_MoaB family. Members of this family are involved in biosynthesis of the molybdenum cofactor (MoCF) an essential cofactor of a diverse group of redox enzymes. MoCF biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea; Region: MogA_MoaB; cd00886 980514006537 MPT binding site; other site 980514006538 trimer interface [polypeptide binding]; other site 980514006539 MoaE family. Members of this family are involved in biosynthesis of the molybdenum cofactor (Moco), an essential cofactor for a diverse group of redox enzymes. Moco biosynthesis is an evolutionarily conserved pathway present in eubacteria, archaea and...; Region: MoaE; cd00756 980514006540 MoaE homodimer interface [polypeptide binding]; other site 980514006541 MoaD interaction [polypeptide binding]; other site 980514006542 active site residues [active] 980514006543 molybdenum cofactor biosynthesis protein A, bacterial; Region: moaA; TIGR02666 980514006544 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 980514006545 FeS/SAM binding site; other site 980514006546 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 980514006547 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 980514006548 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 980514006549 molybdopterin cofactor binding site; other site 980514006550 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 980514006551 The MopB_CT_1 CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. This CD is of the...; Region: MopB_CT_1; cd02782 980514006552 putative molybdopterin cofactor binding site; other site 980514006553 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 980514006554 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 980514006555 GTP binding site; other site 980514006556 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 980514006557 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_Nitrate-R-NapA-like; cd02754 980514006558 [4Fe-4S] binding site [ion binding]; other site 980514006559 molybdopterin cofactor binding site; other site 980514006560 Nitrate reductases, NapA (Nitrate-R-NapA), NasA, and NarB catalyze the reduction of nitrate to nitrite. Monomeric Nas is located in the cytoplasm and participates in nitrogen assimilation. Dimeric Nap is located in the periplasm and is coupled to quinol...; Region: MopB_CT_Nitrate-R-NapA-like; cd02791 980514006561 molybdopterin cofactor binding site; other site 980514006562 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 980514006563 Assimilatory nitrite reductase (NirD) family, Rieske domain; Assimilatory nitrate and nitrite reductases convert nitrate through nitrite to ammonium. Members include bacterial and fungal proteins. The bacterial NirD contains a single Rieske domain while...; Region: Rieske_NirD; cd03529 980514006564 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 980514006565 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 980514006566 nitrite reductase subunit NirD; Provisional; Region: PRK14989 980514006567 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 980514006568 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 980514006569 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 980514006570 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 980514006571 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 980514006572 active site 980514006573 phosphorylation site [posttranslational modification] 980514006574 intermolecular recognition site; other site 980514006575 dimerization interface [polypeptide binding]; other site 980514006576 ANTAR domain; Region: ANTAR; pfam03861 980514006577 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 980514006578 NMT1-like family; Region: NMT1_2; pfam13379 980514006579 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 980514006580 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 980514006581 active site 980514006582 DNA binding site [nucleotide binding] 980514006583 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 980514006584 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 980514006585 Dehydroquinase class II; Region: DHquinase_II; pfam01220 980514006586 trimer interface [polypeptide binding]; other site 980514006587 active site 980514006588 dimer interface [polypeptide binding]; other site 980514006589 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 980514006590 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 980514006591 carboxyltransferase (CT) interaction site; other site 980514006592 biotinylation site [posttranslational modification]; other site 980514006593 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 980514006594 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 980514006595 ATP-grasp domain; Region: ATP-grasp_4; cl17255 980514006596 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 980514006597 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 980514006598 putative 3-phenylpropionic acid transporter; Provisional; Region: PRK11128 980514006599 putative substrate translocation pore; other site 980514006600 Transposase DDE domain; Region: DDE_Tnp_1_5; pfam13737 980514006601 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 980514006602 TIGR02594 family protein; Region: TIGR02594 980514006603 TIGR02594 family protein; Region: TIGR02594 980514006604 Predicted Zn peptidase [Amino acid transport and metabolism]; Region: COG2856 980514006605 Uncharacterized archaeal coiled-coil protein [Function unknown]; Region: COG1340 980514006606 Carbohydrate binding domain; Region: CBM_4_9; pfam02018 980514006607 Domain of unknown function (DUF1983); Region: DUF1983; pfam09327 980514006608 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 980514006609 P22_AR N-terminal domain; Region: P22_AR_N; pfam10547 980514006610 Hedgehog/Intein domain, found in Hedgehog proteins as well as proteins which contain inteins and undergo protein splicing (e.g. DnaB, RIR1-2, GyrA and Pol). In protein splicing an intervening polypeptide sequence - the intein - is excised from a protein; Region: Hint; cl17442 980514006611 protein-splicing catalytic site; other site 980514006612 thioester formation/cholesterol transfer; other site 980514006613 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 980514006614 putative pectinesterase; Region: PLN02432; cl01911 980514006615 P22_AR N-terminal domain; Region: P22_AR_N; pfam10547 980514006616 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 980514006617 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 980514006618 non-specific DNA binding site [nucleotide binding]; other site 980514006619 salt bridge; other site 980514006620 sequence-specific DNA binding site [nucleotide binding]; other site 980514006621 Endodeoxyribonuclease RusA; Region: RusA; pfam05866 980514006622 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 980514006623 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 980514006624 Walker A motif; other site 980514006625 ATP binding site [chemical binding]; other site 980514006626 Walker B motif; other site 980514006627 arginine finger; other site 980514006628 Cytosine-C5 specific DNA methylases; Methyl transfer reactions play an important role in many aspects of biology. Cytosine-specific DNA methylases are found both in prokaryotes and eukaryotes. DNA methylation, or the covalent addition of a methyl group...; Region: Cyt_C5_DNA_methylase; cd00315 980514006629 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dcm; COG0270 980514006630 cofactor binding site; other site 980514006631 DNA binding site [nucleotide binding] 980514006632 substrate interaction site [chemical binding]; other site 980514006633 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 980514006634 Active Sites [active] 980514006635 MarR family; Region: MarR_2; cl17246 980514006636 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 980514006637 Predicted transcriptional regulator [Transcription]; Region: COG2932 980514006638 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 980514006639 Catalytic site [active] 980514006640 Uncharacterized conserved protein (DUF2303); Region: DUF2303; cl02338 980514006641 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 980514006642 exodeoxyribonuclease X; Provisional; Region: PRK07983 980514006643 active site 980514006644 catalytic site [active] 980514006645 substrate binding site [chemical binding]; other site 980514006646 Ead/Ea22-like protein; Region: Ead_Ea22; pfam13935 980514006647 dihydropteroate synthase; Region: DHPS; TIGR01496 980514006648 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 980514006649 substrate binding pocket [chemical binding]; other site 980514006650 dimer interface [polypeptide binding]; other site 980514006651 inhibitor binding site; inhibition site 980514006652 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; cl17512 980514006653 tRNA pseudouridine synthase ACD; Provisional; Region: PRK14588 980514006654 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 980514006655 non-specific DNA binding site [nucleotide binding]; other site 980514006656 salt bridge; other site 980514006657 sequence-specific DNA binding site [nucleotide binding]; other site 980514006658 Domain of unknown function (DUF955); Region: DUF955; pfam06114 980514006659 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 980514006660 active site 980514006661 Int/Topo IB signature motif; other site 980514006662 DNA binding site [nucleotide binding] 980514006663 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 980514006664 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 980514006665 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 980514006666 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 980514006667 Glutamate synthase domain 2 [Amino acid transport and metabolism]; Region: GltB; COG0069 980514006668 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 980514006669 active site 980514006670 FMN binding site [chemical binding]; other site 980514006671 substrate binding site [chemical binding]; other site 980514006672 3Fe-4S cluster binding site [ion binding]; other site 980514006673 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 980514006674 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 980514006675 Uncharacterized conserved protein [Function unknown]; Region: COG1434 980514006676 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 980514006677 putative active site [active] 980514006678 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 980514006679 FAD binding domain; Region: FAD_binding_4; pfam01565 980514006680 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 980514006681 Low molecular weight phosphatase family; Region: LMWPc; cd00115 980514006682 Low molecular weight phosphotyrosine protein phosphatase; Region: LMWPc; pfam01451 980514006683 active site 980514006684 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 980514006685 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 980514006686 5-hydroxyvalerate dehydrogenase (HVD) catalyzes the oxidation of 5-hydroxyvalerate to 5-oxovalerate with NAD+ as cofactor; Region: HVD; cd08193 980514006687 putative active site [active] 980514006688 metal binding site [ion binding]; metal-binding site 980514006689 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 980514006690 active site 980514006691 phospholipase C, phosphocholine-specific, Pseudomonas-type; Region: PC_PLC; TIGR03396 980514006692 Phosphoesterase family; Region: Phosphoesterase; pfam04185 980514006693 Domain of unknown function (DUF756); Region: DUF756; pfam05506 980514006694 Domain of unknown function (DUF756); Region: DUF756; pfam05506 980514006695 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14960 980514006696 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 980514006697 Walker A motif; other site 980514006698 ATP binding site [chemical binding]; other site 980514006699 Walker B motif; other site 980514006700 arginine finger; other site 980514006701 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 980514006702 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 980514006703 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 980514006704 putative substrate translocation pore; other site 980514006705 TetR family transcriptional regulator; Provisional; Region: PRK14996 980514006706 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 980514006707 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 980514006708 Beta-lactamase; Region: Beta-lactamase; pfam00144 980514006709 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 980514006710 The hotdog fold was initially identified in the E. coli FabA (beta-hydroxydecanoyl-acyl carrier protein (ACP)-dehydratase) structure and subsequently in 4HBT (4-hydroxybenzoyl-CoA thioesterase) from Pseudomonas. A number of other seemingly unrelated...; Region: hot_dog; cl00509 980514006711 active site 2 [active] 980514006712 active site 1 [active] 980514006713 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08261 980514006714 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 980514006715 NAD(P) binding site [chemical binding]; other site 980514006716 active site 980514006717 acetyl-CoA acetyltransferase; Provisional; Region: PRK09268 980514006718 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 980514006719 dimer interface [polypeptide binding]; other site 980514006720 active site 980514006721 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 980514006722 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 980514006723 Transcriptional regulator [Transcription]; Region: LysR; COG0583 980514006724 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514006725 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 980514006726 dimerization interface [polypeptide binding]; other site 980514006727 transaldolase-like protein; Provisional; Region: PTZ00411 980514006728 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 980514006729 active site 980514006730 dimer interface [polypeptide binding]; other site 980514006731 catalytic residue [active] 980514006732 leucine export protein LeuE; Provisional; Region: PRK10958 980514006733 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 980514006734 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 980514006735 AsnC family; Region: AsnC_trans_reg; pfam01037 980514006736 Benzoate membrane transport protein; Region: BenE; pfam03594 980514006737 benzoate transporter; Region: benE; TIGR00843 980514006738 Uncharacterized membrane protein [Function unknown]; Region: SapB; COG1285 980514006739 MgtC family; Region: MgtC; pfam02308 980514006740 magnesium-transporting ATPase MgtA; Provisional; Region: PRK10517 980514006741 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 980514006742 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 980514006743 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 980514006744 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 980514006745 RDD family; Region: RDD; pfam06271 980514006746 dipeptidase, putative; Region: dipeptidaselike; TIGR01887 980514006747 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 980514006748 Ligand Binding Site [chemical binding]; other site 980514006749 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 980514006750 ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]; Region: Uup; COG0488 980514006751 Walker A/P-loop; other site 980514006752 ATP binding site [chemical binding]; other site 980514006753 Q-loop/lid; other site 980514006754 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 980514006755 ABC transporter signature motif; other site 980514006756 Walker B; other site 980514006757 D-loop; other site 980514006758 ABC transporter; Region: ABC_tran_2; pfam12848 980514006759 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 980514006760 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 980514006761 Outer membrane receptor for ferric coprogen and ferric-rhodotorulic acid [Inorganic ion transport and metabolism]; Region: FhuE; COG4773 980514006762 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 980514006763 N-terminal plug; other site 980514006764 ligand-binding site [chemical binding]; other site 980514006765 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 980514006766 Coenzyme A binding pocket [chemical binding]; other site 980514006767 synaptic vesicle protein SV2; Region: synapt_SV2; TIGR01299 980514006768 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 980514006769 Mechanosensitive ion channel; Region: MS_channel; pfam00924 980514006770 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 980514006771 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 980514006772 N-terminal plug; other site 980514006773 ligand-binding site [chemical binding]; other site 980514006774 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 980514006775 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 980514006776 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 980514006777 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 980514006778 putative DNA binding site [nucleotide binding]; other site 980514006779 putative Zn2+ binding site [ion binding]; other site 980514006780 AsnC family; Region: AsnC_trans_reg; pfam01037 980514006781 chorismate mutase; Provisional; Region: PRK08055 980514006782 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 980514006783 active site 980514006784 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 980514006785 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 980514006786 NAD(P) binding site [chemical binding]; other site 980514006787 active site 980514006788 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 980514006789 Glutathione S-transferase (GST) family, N-terminal domain; a large, diverse group of cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic...; Region: GST_N_family; cd00570 980514006790 C-terminal domain interface [polypeptide binding]; other site 980514006791 GSH binding site (G-site) [chemical binding]; other site 980514006792 dimer interface [polypeptide binding]; other site 980514006793 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cd00299 980514006794 N-terminal domain interface [polypeptide binding]; other site 980514006795 aminopeptidase N; Provisional; Region: pepN; PRK14015 980514006796 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 980514006797 active site 980514006798 Zn binding site [ion binding]; other site 980514006799 4-methyl-5-beta-hydroxyethylthiazole (Thz) kinase catalyzes the phosphorylation of the hydroxylgroup of Thz. A reaction that allows cells to recycle Thz into the thiamine biosynthesis pathway, as an alternative to its synthesis from cysteine, tyrosine...; Region: THZ_kinase; cd01170 980514006800 substrate binding site [chemical binding]; other site 980514006801 multimerization interface [polypeptide binding]; other site 980514006802 ATP binding site [chemical binding]; other site 980514006803 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 980514006804 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 980514006805 DNA gyrase inhibitor [DNA replication, recombination, and repair]; Region: COG3449 980514006806 5-carboxymethyl-2-hydroxymuconate isomerase (CHMI) is a trimeric enzyme catalyzing the isomerization of the unsaturated ketone 5-(carboxymethyl)-2-hydroxymuconate to 5-(carboxymethyl)-2-oxo-3-hexene-1,6-dionate. This is one step in the...; Region: CHMI; cd00580 980514006807 putative substrate binding pocket [chemical binding]; other site 980514006808 trimer interface [polypeptide binding]; other site 980514006809 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 980514006810 PIF1-like helicase; Region: PIF1; pfam05970 980514006811 Walker A motif; other site 980514006812 ATP binding site [chemical binding]; other site 980514006813 Walker B motif; other site 980514006814 Lactadehyde:propanediol oxidoreductase (LPO) catalyzes the interconversion between L-lactaldehyde and L-1,2-propanediol in Escherichia coli and other enterobacteria; Region: LPO; cd08176 980514006815 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 980514006816 dimer interface [polypeptide binding]; other site 980514006817 active site 980514006818 metal binding site [ion binding]; metal-binding site 980514006819 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 980514006820 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 980514006821 Transcriptional regulatory protein, C terminal; Region: Trans_reg_C; smart00862 980514006822 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 980514006823 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 980514006824 NAD(P) binding site [chemical binding]; other site 980514006825 catalytic residues [active] 980514006826 ethanolamine permease; Region: 2A0305; TIGR00908 980514006827 ethanolamine ammonia lyase large subunit; Provisional; Region: PRK15067 980514006828 Ethanolamine ammonia lyase large subunit (EutB); Region: EutB; pfam06751 980514006829 ethanolamine ammonia-lyase small subunit; Provisional; Region: PRK05465 980514006830 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 980514006831 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 980514006832 catalytic triad [active] 980514006833 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 980514006834 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 980514006835 active site 980514006836 HIGH motif; other site 980514006837 nucleotide binding site [chemical binding]; other site 980514006838 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 980514006839 KMSKS motif; other site 980514006840 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 980514006841 cyclophilin_EcCYP_like: cyclophilin-type A-like peptidylprolyl cis- trans isomerase (PPIase) domain similar to the cytosolic E. coli cyclophilin A and Streptomyces antibioticus SanCyp18. Compared to the archetypal cyclophilin Human cyclophilin A, these...; Region: cyclophilin_EcCYP_like; cd01920 980514006842 substrate binding site [chemical binding]; other site 980514006843 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 980514006844 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 980514006845 putative active site [active] 980514006846 putative metal binding site [ion binding]; other site 980514006847 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 980514006848 dimer interface [polypeptide binding]; other site 980514006849 FMN binding site [chemical binding]; other site 980514006850 EamA-like transporter family; Region: EamA; pfam00892 980514006851 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 980514006852 bacterial Hfq-like; Region: Hfq; cd01716 980514006853 hexamer interface [polypeptide binding]; other site 980514006854 Sm1 motif; other site 980514006855 RNA binding site [nucleotide binding]; other site 980514006856 Sm2 motif; other site 980514006857 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 980514006858 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 980514006859 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 980514006860 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 980514006861 ATP binding site [chemical binding]; other site 980514006862 Mg2+ binding site [ion binding]; other site 980514006863 G-X-G motif; other site 980514006864 MutL_Trans_MutL: transducer domain, having a ribosomal S5 domain 2-like fold, found in proteins similar to Escherichia coli MutL. EcMutL belongs to the DNA mismatch repair (MutL/MLH1/PMS2) family. This transducer domain is homologous to the second...; Region: MutL_Trans_MutL; cd03482 980514006865 ATP binding site [chemical binding]; other site 980514006866 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 980514006867 Uncharacterized P-loop hydrolase UPF0079; Region: UPF0079; cl00520 980514006868 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 980514006869 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 980514006870 probable active site [active] 980514006871 RelB antitoxin; Region: RelB; cl01171 980514006872 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 980514006873 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 980514006874 Coenzyme A binding pocket [chemical binding]; other site 980514006875 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 980514006876 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 980514006877 RNA binding surface [nucleotide binding]; other site 980514006878 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 980514006879 active site 980514006880 uracil binding [chemical binding]; other site 980514006881 Protein of unknown function (DUF441); Region: DUF441; pfam04284 980514006882 Transcriptional regulator [Transcription]; Region: LysR; COG0583 980514006883 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514006884 The C-terminal substrate binding domain of LysR-type transcriptional regulator metR, which regulates the expression of methionine biosynthetic genes, contains type 2 periplasmic binding fold; Region: PBP2_MetR; cd08441 980514006885 putative dimerization interface [polypeptide binding]; other site 980514006886 Domain of unknown function (DUF4198); Region: DUF4198; pfam10670 980514006887 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 980514006888 Major Facilitator Superfamily; Region: MFS_1; pfam07690 980514006889 putative substrate translocation pore; other site 980514006890 Ion transport protein; Region: Ion_trans; pfam00520 980514006891 Ion channel; Region: Ion_trans_2; pfam07885 980514006892 CCC1-related family of proteins; Region: CCC1_like; cl00278 980514006893 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 980514006894 Aconitase B swivel domain. Aconitate hydratase B is involved in energy metabolism as part of the TCA cycle. It catalyses the formation of cis-aconitate from citrate. This is the aconitase swivel domain, which undergoes swivelling conformational change in...; Region: AcnB_Swivel; cd01576 980514006895 substrate binding site [chemical binding]; other site 980514006896 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 980514006897 substrate binding site [chemical binding]; other site 980514006898 ligand binding site [chemical binding]; other site 980514006899 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2911 980514006900 Family of unknown function (DUF490); Region: DUF490; pfam04357 980514006901 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 980514006902 Membrane-fusion protein [Cell envelope biogenesis, outer membrane]; Region: AcrA; COG0845 980514006903 Surface antigen; Region: Bac_surface_Ag; pfam01103 980514006904 lysophospholipid transporter LplT; Provisional; Region: PRK11195 980514006905 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 980514006906 putative substrate translocation pore; other site 980514006907 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 980514006908 diiron binding motif [ion binding]; other site 980514006909 Protein of unknown function (DUF2799); Region: DUF2799; pfam10973 980514006910 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 980514006911 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 980514006912 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 980514006913 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 980514006914 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 980514006915 active site 980514006916 phosphorylation site [posttranslational modification] 980514006917 intermolecular recognition site; other site 980514006918 dimerization interface [polypeptide binding]; other site 980514006919 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 980514006920 DNA binding site [nucleotide binding] 980514006921 Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]; Region: KdpD; COG2205 980514006922 Osmosensitive K+ channel His kinase sensor domain; Region: KdpD; pfam02702 980514006923 USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium...; Region: USP_OKCHK; cd01987 980514006924 Ligand Binding Site [chemical binding]; other site 980514006925 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 980514006926 dimer interface [polypeptide binding]; other site 980514006927 phosphorylation site [posttranslational modification] 980514006928 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 980514006929 ATP binding site [chemical binding]; other site 980514006930 Mg2+ binding site [ion binding]; other site 980514006931 G-X-G motif; other site 980514006932 potassium-transporting ATPase subunit C; Reviewed; Region: PRK00315 980514006933 potassium-transporting ATPase subunit B; Provisional; Region: PRK01122 980514006934 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 980514006935 Soluble P-type ATPase [General function prediction only]; Region: COG4087 980514006936 potassium-transporting ATPase subunit A; Provisional; Region: PRK05482 980514006937 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; cl00233 980514006938 catalytic center binding site [active] 980514006939 ATP binding site [chemical binding]; other site 980514006940 Dihydroneopterin aldolase (DHNA) and 7,8-dihydroneopterin triphosphate epimerase domain (DHNTPE); these enzymes have been designated folB and folX, respectively. Folate derivatives are essential cofactors in the biosynthesis of purines, pyrimidines, and...; Region: DHNA_DHNTPE; cd00534 980514006941 homooctamer interface [polypeptide binding]; other site 980514006942 active site 980514006943 Predicted unusual protein kinase [General function prediction only]; Region: AarF; COG0661 980514006944 ABC1 family; Region: ABC1; cl17513 980514006945 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 980514006946 ThiF_MoeB_HesA. Family of E1-like enzymes involved in molybdopterin and thiamine biosynthesis family. The common reaction mechanism catalyzed by MoeB and ThiF, like other E1 enzymes, begins with a nucleophilic attack of the C-terminal carboxylate of MoaD...; Region: ThiF_MoeB_HesA_family; cd00757 980514006947 ATP binding site [chemical binding]; other site 980514006948 substrate interface [chemical binding]; other site 980514006949 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 980514006950 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 980514006951 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 980514006952 acyl-activating enzyme (AAE) consensus motif; other site 980514006953 AMP binding site [chemical binding]; other site 980514006954 active site 980514006955 CoA binding site [chemical binding]; other site 980514006956 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 980514006957 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 980514006958 active site 980514006959 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 980514006960 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 980514006961 NAD binding site [chemical binding]; other site 980514006962 homodimer interface [polypeptide binding]; other site 980514006963 homotetramer interface [polypeptide binding]; other site 980514006964 active site 980514006965 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 980514006966 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 980514006967 SurA N-terminal domain; Region: SurA_N; pfam09312 980514006968 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 980514006969 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 980514006970 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 980514006971 substrate binding pocket [chemical binding]; other site 980514006972 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 980514006973 membrane-bound complex binding site; other site 980514006974 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 980514006975 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 980514006976 ABC-ATPase subunit interface; other site 980514006977 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional; Region: PRK09328 980514006978 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 980514006979 peptide chain release factor 1; Validated; Region: prfA; PRK00591 980514006980 This domain is found in peptide chain release factors; Region: PCRF; smart00937 980514006981 RF-1 domain; Region: RF-1; pfam00472 980514006982 Putative intracellular protease/amidase [General function prediction only]; Region: ThiJ; COG0693 980514006983 Type 1 glutamine amidotransferase (GATase1)-like domain found in proteins similar to Escherichia coli Hsp31 protein; Region: GATase1_Hsp31_like; cd03141 980514006984 potential catalytic triad [active] 980514006985 conserved cys residue [active] 980514006986 Transcriptional regulator [Transcription]; Region: LysR; COG0583 980514006987 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514006988 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 980514006989 putative effector binding pocket; other site 980514006990 dimerization interface [polypeptide binding]; other site 980514006991 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 980514006992 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 980514006993 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 980514006994 PgaD-like protein; Region: PgaD; pfam13994 980514006995 N-glycosyltransferase; Provisional; Region: PRK11204 980514006996 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 980514006997 DXD motif; other site 980514006998 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB; Region: deacetyl_PgaB; TIGR03938 980514006999 N-terminal putative catalytic polysaccharide deacetylase domain of bacterial poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB, and similar proteins; Region: CE4_PgaB_5s; cd10964 980514007000 putative active site [active] 980514007001 putative metal binding site [ion binding]; other site 980514007002 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA; Region: PGA_TPR_OMP; TIGR03939 980514007003 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 980514007004 binding surface 980514007005 TPR motif; other site 980514007006 PEP synthetase regulatory protein; Provisional; Region: PRK05339 980514007007 phosphoenolpyruvate synthase; Validated; Region: PRK06464 980514007008 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 980514007009 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 980514007010 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 980514007011 Domain of unknown function (DUF4339); Region: DUF4339; pfam14237 980514007012 RDD family; Region: RDD; pfam06271 980514007013 cytochrome o ubiquinol oxidase subunit II; Region: CyoA; TIGR01433 980514007014 COX Aromatic Rich Motif; Region: COX_ARM; pfam06481 980514007015 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 980514007016 Ubiquinol oxidase subunit I. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously pumps protons...; Region: Ubiquinol_Oxidase_I; cd01662 980514007017 D-pathway; other site 980514007018 Putative ubiquinol binding site [chemical binding]; other site 980514007019 Low-spin heme (heme b) binding site [chemical binding]; other site 980514007020 Putative water exit pathway; other site 980514007021 Binuclear center (heme o3/CuB) [ion binding]; other site 980514007022 K-pathway; other site 980514007023 Putative proton exit pathway; other site 980514007024 Ubiquinol oxidase subunit III subfamily. Ubiquinol oxidase, the terminal oxidase in the respiratory chains of aerobic bacteria, is a multi-chain transmembrane protein located in the cell membrane. It catalyzes the reduction of O2 and simultaneously...; Region: Ubiquinol_oxidase_III; cd02863 980514007025 Subunit I/III interface [polypeptide binding]; other site 980514007026 Subunit III/IV interface [polypeptide binding]; other site 980514007027 cytochrome o ubiquinol oxidase subunit IV; Provisional; Region: PRK10582 980514007028 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 980514007029 UbiA prenyltransferase family; Region: UbiA; pfam01040 980514007030 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 980514007031 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 980514007032 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 980514007033 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 980514007034 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 980514007035 replicative DNA helicase; Region: DnaB; TIGR00665 980514007036 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 980514007037 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 980514007038 Walker A motif; other site 980514007039 ATP binding site [chemical binding]; other site 980514007040 Walker B motif; other site 980514007041 DNA binding loops [nucleotide binding] 980514007042 alanine racemase; Reviewed; Region: alr; PRK00053 980514007043 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 980514007044 active site 980514007045 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 980514007046 substrate binding site [chemical binding]; other site 980514007047 catalytic residues [active] 980514007048 dimer interface [polypeptide binding]; other site 980514007049 The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a...; Region: Ntn_hydrolase; cl00467 980514007050 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 980514007051 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 980514007052 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 980514007053 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 980514007054 Uncharacterized conserved protein [Function unknown]; Region: COG2308 980514007055 Predicted transcriptional regulator [Transcription]; Region: COG2378 980514007056 WYL domain; Region: WYL; pfam13280 980514007057 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 980514007058 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 980514007059 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 980514007060 Ribosomal protein L11 methyltransferase (PrmA); Region: PrmA; pfam06325 980514007061 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 980514007062 S-adenosylmethionine binding site [chemical binding]; other site 980514007063 MJ0042 family finger-like domain; Region: MJ0042_CXXC; TIGR02098 980514007064 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 980514007065 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 980514007066 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 980514007067 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 980514007068 purine monophosphate binding site [chemical binding]; other site 980514007069 dimer interface [polypeptide binding]; other site 980514007070 putative catalytic residues [active] 980514007071 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 980514007072 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 980514007073 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 980514007074 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 980514007075 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 980514007076 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 980514007077 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 980514007078 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 980514007079 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 980514007080 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 980514007081 Walker A/P-loop; other site 980514007082 ATP binding site [chemical binding]; other site 980514007083 Q-loop/lid; other site 980514007084 ABC transporter signature motif; other site 980514007085 Walker B; other site 980514007086 D-loop; other site 980514007087 H-loop/switch region; other site 980514007088 NIL domain; Region: NIL; pfam09383 980514007089 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 980514007090 dimer interface [polypeptide binding]; other site 980514007091 conserved gate region; other site 980514007092 ABC-ATPase subunit interface; other site 980514007093 hydroxyacylglutathione hydrolase; Region: GSH_gloB; TIGR03413 980514007094 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 980514007095 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 980514007096 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 980514007097 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 980514007098 multidrug resistance protein D; Provisional; Region: emrD; PRK11652 980514007099 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 980514007100 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 980514007101 N-acetyl-D-glucosamine binding site [chemical binding]; other site 980514007102 catalytic residue [active] 980514007103 DEAD-like helicases superfamily; Region: DEXDc; smart00487 980514007104 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; cl17251 980514007105 ATP binding site [chemical binding]; other site 980514007106 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 980514007107 Beta-lactamase class D [Defense mechanisms]; Region: COG2602 980514007108 mce related protein; Region: MCE; pfam02470 980514007109 mce related protein; Region: MCE; pfam02470 980514007110 mce related protein; Region: MCE; pfam02470 980514007111 Paraquat-inducible protein A; Region: PqiA; pfam04403 980514007112 Paraquat-inducible protein A; Region: PqiA; pfam04403 980514007113 aspartate-alanine antiporter; Region: Asp_Ala_antiprt; TIGR03802 980514007114 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 980514007115 TrkA-C domain; Region: TrkA_C; pfam02080 980514007116 TrkA-C domain; Region: TrkA_C; pfam02080 980514007117 Predicted Permease Membrane Region; Region: Asp-Al_Ex; pfam06826 980514007118 aspartate 4-decarboxylase; Region: asp_4_decarbox; TIGR03801 980514007119 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 980514007120 pyridoxal 5'-phosphate binding site [chemical binding]; other site 980514007121 homodimer interface [polypeptide binding]; other site 980514007122 catalytic residue [active] 980514007123 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 980514007124 EamA-like transporter family; Region: EamA; pfam00892 980514007125 EamA-like transporter family; Region: EamA; pfam00892 980514007126 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 980514007127 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 980514007128 proline/glycine betaine transporter; Provisional; Region: PRK10642 980514007129 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 980514007130 putative substrate translocation pore; other site 980514007131 Osmosensory transporter coiled coil; Region: Osmo_CC; pfam08946 980514007132 Spore Coat Protein U domain; Region: SCPU; cl02253 980514007133 Spore Coat Protein U domain; Region: SCPU; pfam05229 980514007134 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 980514007135 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 980514007136 PapC C-terminal domain; Region: PapC_C; pfam13953 980514007137 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 980514007138 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 980514007139 Spore Coat Protein U domain; Region: SCPU; pfam05229 980514007140 Spore Coat Protein U domain; Region: SCPU; cl02253 980514007141 Spore Coat Protein U domain; Region: SCPU; pfam05229 980514007142 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 980514007143 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 980514007144 Transcriptional regulators [Transcription]; Region: FadR; COG2186 980514007145 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 980514007146 DNA-binding site [nucleotide binding]; DNA binding site 980514007147 FCD domain; Region: FCD; pfam07729 980514007148 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 980514007149 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 980514007150 Walker A motif; other site 980514007151 ATP binding site [chemical binding]; other site 980514007152 Walker B motif; other site 980514007153 Na+/glutamate symporter [Amino acid transport and metabolism]; Region: GltS; COG0786 980514007154 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 980514007155 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 980514007156 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 980514007157 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 980514007158 Helix-turn-helix domain; Region: HTH_18; pfam12833 980514007159 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 980514007160 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 980514007161 Sensors of blue-light using FAD; Region: BLUF; pfam04940 980514007162 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 980514007163 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 980514007164 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 980514007165 active site 980514007166 Methyltransferase domain; Region: Methyltransf_31; pfam13847 980514007167 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 980514007168 S-adenosylmethionine binding site [chemical binding]; other site 980514007169 GlcNAc-PI de-N-acetylase; Region: PIG-L; pfam02585 980514007170 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 980514007171 active site 980514007172 Uncharacterized protein conserved in bacteria (DUF2171); Region: DUF2171; pfam09939 980514007173 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 980514007174 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 980514007175 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 980514007176 tetrameric interface [polypeptide binding]; other site 980514007177 NAD binding site [chemical binding]; other site 980514007178 catalytic residues [active] 980514007179 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 980514007180 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 980514007181 inhibitor-cofactor binding pocket; inhibition site 980514007182 pyridoxal 5'-phosphate binding site [chemical binding]; other site 980514007183 catalytic residue [active] 980514007184 Transcriptional regulator [Transcription]; Region: LysR; COG0583 980514007185 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514007186 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 980514007187 dimerization interface [polypeptide binding]; other site 980514007188 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 980514007189 substrate binding site [chemical binding]; other site 980514007190 activation loop (A-loop); other site 980514007191 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 980514007192 Domain of unknown function (DUF3336); Region: DUF3336; pfam11815 980514007193 Triacylglycerol lipase 3, 4, and 5 and Sugar-Dependent 1 lipase; Region: Pat_TGL3-4-5_SDP1; cd07206 980514007194 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 980514007195 active site 980514007196 nucleophile elbow; other site 980514007197 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 980514007198 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 980514007199 Walker A motif; other site 980514007200 ATP binding site [chemical binding]; other site 980514007201 Walker B motif; other site 980514007202 UGMP family protein; Validated; Region: PRK09604 980514007203 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 980514007204 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 980514007205 Yqey-like protein; Region: YqeY; pfam09424 980514007206 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 980514007207 Peptidase family M48; Region: Peptidase_M48; cl12018 980514007208 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 980514007209 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 980514007210 dimerization interface [polypeptide binding]; other site 980514007211 ligand binding site [chemical binding]; other site 980514007212 NADP binding site [chemical binding]; other site 980514007213 catalytic site [active] 980514007214 Peptidase family M48; Region: Peptidase_M48; cl12018 980514007215 amidophosphoribosyltransferase; Provisional; Region: PRK09246 980514007216 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 980514007217 active site 980514007218 tetramer interface [polypeptide binding]; other site 980514007219 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 980514007220 active site 980514007221 Colicin V production protein; Region: Colicin_V; pfam02674 980514007222 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 980514007223 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 980514007224 quinone interaction residues [chemical binding]; other site 980514007225 active site 980514007226 catalytic residues [active] 980514007227 FMN binding site [chemical binding]; other site 980514007228 substrate binding site [chemical binding]; other site 980514007229 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 980514007230 Type II secretion system (T2SS), protein L; Region: T2SL; pfam05134 980514007231 GspL periplasmic domain; Region: GspL_C; cl14909 980514007232 Histidine phosphatase domain found in phosphoglycerate mutases and related proteins, mostly phosphatases; contains a His residue which is phosphorylated during the reaction; Region: HP_PGM_like; cd07067 980514007233 catalytic core [active] 980514007234 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 980514007235 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 980514007236 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 980514007237 Nitroreductase-like family which includes NADH oxidase and arsenite oxidiase. NADH oxidase catalyses the oxidation of NAD(P)H and accepts a wide broad range of compounds as electron acceptors, such as nitrocompound. Arsenite oxidase in a...; Region: Arsenite_oxidase; cd02135 980514007238 putative FMN binding site [chemical binding]; other site 980514007239 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 980514007240 DEAD-like helicases superfamily; Region: DEXDc; smart00487 980514007241 ATP binding site [chemical binding]; other site 980514007242 Mg++ binding site [ion binding]; other site 980514007243 motif III; other site 980514007244 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 980514007245 nucleotide binding region [chemical binding]; other site 980514007246 ATP-binding site [chemical binding]; other site 980514007247 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 980514007248 DNA-binding site [nucleotide binding]; DNA binding site 980514007249 RNA-binding motif; other site 980514007250 SirA, YedF, and YeeD. Two-layered alpha/beta sandwich domain. SirA (also known as UvrY, and YhhP) belongs to a family of bacterial two-component response regulators that controls secondary metabolism and virulence. The other member of this...; Region: SirA_YedF_YeeD; cd00291 980514007251 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 980514007252 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 980514007253 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 980514007254 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 980514007255 DNA binding residues [nucleotide binding] 980514007256 Uncharacterized small membrane protein [Function unknown]; Region: COG2363 980514007257 ThiaminS ubiquitin-like sulfur carrier protein; Region: ThiS; cd00565 980514007258 thiS-thiF/thiG interaction site; other site 980514007259 Thiazole synthase (ThiG) is the tetrameric enzyme that is involved in the formation of the thiazole moiety of thiamin pyrophosphate, an essential ubiquitous cofactor that plays an important role in carbohydrate and amino acid metabolism. ThiG catalyzes...; Region: ThiG; cd04728 980514007260 ThiS interaction site; other site 980514007261 putative active site [active] 980514007262 tetramer interface [polypeptide binding]; other site 980514007263 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4339 980514007264 hypothetical protein; Validated; Region: PRK02101 980514007265 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 980514007266 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 980514007267 Xaa-His dipeptidase; Region: aa-his-dipept; TIGR01893 980514007268 M20 Peptidase D has specificity for beta-alanyl-L-histidine dipeptide; Region: M20_pepD; cd03890 980514007269 metal binding site [ion binding]; metal-binding site 980514007270 dimer interface [polypeptide binding]; other site 980514007271 bifunctional cyclohexadienyl dehydrogenase/ 3-phosphoshikimate 1-carboxyvinyltransferase; Provisional; Region: PRK14806 980514007272 prephenate dehydrogenase; Validated; Region: PRK08507 980514007273 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 980514007274 hinge; other site 980514007275 active site 980514007276 Chorismate mutase type II; Region: CM_2; cl00693 980514007277 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 980514007278 Prephenate dehydratase; Region: PDT; pfam00800 980514007279 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 980514007280 putative L-Phe binding site [chemical binding]; other site 980514007281 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2819 980514007282 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 980514007283 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 980514007284 active site 980514007285 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK01663 980514007286 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 980514007287 hypothetical protein; Validated; Region: PRK09071 980514007288 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 980514007289 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 980514007290 Protein of unknown function (DUF1315); Region: DUF1315; pfam07023 980514007291 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK01231 980514007292 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 980514007293 penicillin-binding protein 1B; Region: PBP_1b; TIGR02071 980514007294 Transglycosylase; Region: Transgly; pfam00912 980514007295 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 980514007296 hypothetical protein; Provisional; Region: PRK08999 980514007297 The MutT pyrophosphohydrolase is a prototypical Nudix hydrolase that catalyzes the hydrolysis of nucleoside and deoxynucleoside triphosphates (NTPs and dNTPs) by substitution at a beta-phosphorus to yield a nucleotide monophosphate (NMP) and inorganic...; Region: MutT_pyrophosphohydrolase; cd03425 980514007298 active site 980514007299 8-oxo-dGMP binding site [chemical binding]; other site 980514007300 nudix motif; other site 980514007301 metal binding site [ion binding]; metal-binding site 980514007302 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 980514007303 thiamine phosphate binding site [chemical binding]; other site 980514007304 active site 980514007305 Hemin uptake protein hemP; Region: hemP; cl10043 980514007306 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 980514007307 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 980514007308 dimer interface [polypeptide binding]; other site 980514007309 phosphorylation site [posttranslational modification] 980514007310 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 980514007311 ATP binding site [chemical binding]; other site 980514007312 Mg2+ binding site [ion binding]; other site 980514007313 G-X-G motif; other site 980514007314 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 980514007315 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 980514007316 active site 980514007317 phosphorylation site [posttranslational modification] 980514007318 intermolecular recognition site; other site 980514007319 dimerization interface [polypeptide binding]; other site 980514007320 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 980514007321 DNA binding site [nucleotide binding] 980514007322 Bacterial OB fold (BOF) protein; Region: BOF; cl01196 980514007323 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 980514007324 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 980514007325 PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP). It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which...; Region: PulE-GspE; cd01129 980514007326 Walker A motif; other site 980514007327 ATP binding site [chemical binding]; other site 980514007328 Walker B motif; other site 980514007329 Predicted membrane protein [Function unknown]; Region: COG3174 980514007330 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 980514007331 Escherichia coli YaeB and related proteins; Region: UPF0066; cd09281 980514007332 homodimer interaction site [polypeptide binding]; other site 980514007333 cofactor binding site; other site 980514007334 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 980514007335 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently...; Region: FNR1; cd06195 980514007336 FAD binding pocket [chemical binding]; other site 980514007337 FAD binding motif [chemical binding]; other site 980514007338 phosphate binding motif [ion binding]; other site 980514007339 beta-alpha-beta structure motif; other site 980514007340 NAD binding pocket [chemical binding]; other site 980514007341 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 980514007342 hydroxyproline-2-epimerase; Provisional; Region: PRK13971 980514007343 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 980514007344 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 980514007345 DNA-binding site [nucleotide binding]; DNA binding site 980514007346 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 980514007347 pyridoxal 5'-phosphate binding site [chemical binding]; other site 980514007348 homodimer interface [polypeptide binding]; other site 980514007349 catalytic residue [active] 980514007350 putative protease; Provisional; Region: PRK15452 980514007351 Peptidase family U32; Region: Peptidase_U32; pfam01136 980514007352 archaeoflavoprotein, MJ0208 family; Region: flavo_MJ0208; TIGR02700 980514007353 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 980514007354 ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]; Region: HisP; COG4598 980514007355 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 980514007356 Walker A/P-loop; other site 980514007357 ATP binding site [chemical binding]; other site 980514007358 Q-loop/lid; other site 980514007359 ABC transporter signature motif; other site 980514007360 Walker B; other site 980514007361 D-loop; other site 980514007362 H-loop/switch region; other site 980514007363 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 980514007364 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 980514007365 dimer interface [polypeptide binding]; other site 980514007366 conserved gate region; other site 980514007367 putative PBP binding loops; other site 980514007368 ABC-ATPase subunit interface; other site 980514007369 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 980514007370 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 980514007371 dimer interface [polypeptide binding]; other site 980514007372 conserved gate region; other site 980514007373 putative PBP binding loops; other site 980514007374 ABC-ATPase subunit interface; other site 980514007375 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 980514007376 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 980514007377 substrate binding pocket [chemical binding]; other site 980514007378 membrane-bound complex binding site; other site 980514007379 hinge residues; other site 980514007380 Transcriptional regulator [Transcription]; Region: LysR; COG0583 980514007381 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514007382 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator CrgA-like, contains the type 2 periplasmic binding fold; Region: PBP2_CrgA_like_3; cd08472 980514007383 putative effector binding pocket; other site 980514007384 putative dimerization interface [polypeptide binding]; other site 980514007385 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 980514007386 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 980514007387 HlyD family secretion protein; Region: HlyD_3; pfam13437 980514007388 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 980514007389 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 980514007390 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 980514007391 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 980514007392 dimer interface [polypeptide binding]; other site 980514007393 active site 980514007394 glycine-pyridoxal phosphate binding site [chemical binding]; other site 980514007395 folate binding site [chemical binding]; other site 980514007396 Family of unknown function (DUF695); Region: DUF695; pfam05117 980514007397 Protein of unknown function (DUF1260); Region: DUF1260; pfam06877 980514007398 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 980514007399 Secretory lipase; Region: LIP; pfam03583 980514007400 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 980514007401 exodeoxyribonuclease X; Provisional; Region: PRK07983 980514007402 active site 980514007403 catalytic site [active] 980514007404 substrate binding site [chemical binding]; other site 980514007405 Protein of unknown function (DUF3820); Region: DUF3820; cl01411 980514007406 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 980514007407 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 980514007408 Walker A/P-loop; other site 980514007409 ATP binding site [chemical binding]; other site 980514007410 Q-loop/lid; other site 980514007411 ABC transporter signature motif; other site 980514007412 Walker B; other site 980514007413 D-loop; other site 980514007414 H-loop/switch region; other site 980514007415 inner membrane transport permease; Provisional; Region: PRK15066 980514007416 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 980514007417 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 980514007418 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 980514007419 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 980514007420 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 980514007421 Transglycosylase SLT domain; Region: SLT_2; pfam13406 980514007422 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 980514007423 N-acetyl-D-glucosamine binding site [chemical binding]; other site 980514007424 catalytic residue [active] 980514007425 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 980514007426 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 980514007427 Protein of unknown function (DUF962); Region: DUF962; cl01879 980514007428 AzlC protein; Region: AzlC; cl00570 980514007429 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 980514007430 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 980514007431 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 980514007432 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 980514007433 Protein of unknown function (DUF3465); Region: DUF3465; pfam11948 980514007434 elongation factor Ts; Provisional; Region: tsf; PRK09377 980514007435 UBA/TS-N domain; Region: UBA; pfam00627 980514007436 Elongation factor TS; Region: EF_TS; pfam00889 980514007437 Elongation factor TS; Region: EF_TS; pfam00889 980514007438 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 980514007439 rRNA interaction site [nucleotide binding]; other site 980514007440 S8 interaction site; other site 980514007441 putative laminin-1 binding site; other site 980514007442 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 980514007443 active site 980514007444 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 980514007445 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 980514007446 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 980514007447 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 980514007448 Major Facilitator Superfamily; Region: MFS_1; pfam07690 980514007449 putative substrate translocation pore; other site 980514007450 soluble pyridine nucleotide transhydrogenase; Provisional; Region: PRK05249 980514007451 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 980514007452 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 980514007453 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 980514007454 lipoyl synthase; Provisional; Region: PRK05481 980514007455 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 980514007456 FeS/SAM binding site; other site 980514007457 acyl-CoA dehydrogenase; Reviewed; Region: fadE; PRK09463 980514007458 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 980514007459 active site 980514007460 Domain of unknown function (DUF1974); Region: DUF1974; pfam09317 980514007461 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 980514007462 Peptidase family C39 mostly contains bacteriocin-processing endopeptidases from bacteria. The cysteine peptidases in family C39 cleave the "double-glycine" leader peptides from the precursors of various bacteriocins (mostly non-lantibiotic); Region: Peptidase_C39_like; cl00296 980514007463 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 980514007464 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 980514007465 homotetramer interface [polypeptide binding]; other site 980514007466 ligand binding site [chemical binding]; other site 980514007467 catalytic site [active] 980514007468 NAD binding site [chemical binding]; other site 980514007469 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 980514007470 FAD binding site [chemical binding]; other site 980514007471 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 980514007472 RNA methyltransferase, RsmE family; Region: TIGR00046 980514007473 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 980514007474 PAS fold; Region: PAS_3; pfam08447 980514007475 heme pocket [chemical binding]; other site 980514007476 putative active site [active] 980514007477 PAS domain S-box; Region: sensory_box; TIGR00229 980514007478 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 980514007479 putative active site [active] 980514007480 heme pocket [chemical binding]; other site 980514007481 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 980514007482 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 980514007483 metal binding site [ion binding]; metal-binding site 980514007484 active site 980514007485 I-site; other site 980514007486 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cd01948 980514007487 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 980514007488 Malic enzyme, N-terminal domain; Region: malic; pfam00390 980514007489 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 980514007490 putative NAD(P) binding site [chemical binding]; other site 980514007491 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 980514007492 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 980514007493 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 980514007494 active site 980514007495 NTP binding site [chemical binding]; other site 980514007496 metal binding triad [ion binding]; metal-binding site 980514007497 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 980514007498 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 980514007499 Zn2+ binding site [ion binding]; other site 980514007500 Mg2+ binding site [ion binding]; other site 980514007501 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 980514007502 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 980514007503 protein binding site [polypeptide binding]; other site 980514007504 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 980514007505 Uncharacterized conserved protein [Function unknown]; Region: COG0327 980514007506 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 980514007507 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 980514007508 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 980514007509 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 980514007510 Dipeptidyl aminopeptidases/acylaminoacyl-peptidases [Amino acid transport and metabolism]; Region: DAP2; COG1506 980514007511 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 980514007512 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 980514007513 UbiA prenyltransferase family; Region: UbiA; pfam01040 980514007514 Chorismate lyase; Region: Chor_lyase; cl01230 980514007515 glutamine synthetase; Provisional; Region: glnA; PRK09469 980514007516 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 980514007517 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 980514007518 Dipeptide/tripeptide permease [Amino acid transport and metabolism]; Region: PTR2; COG3104 980514007519 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 980514007520 putative substrate translocation pore; other site 980514007521 POT family; Region: PTR2; cl17359 980514007522 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 980514007523 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 980514007524 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 980514007525 active site 980514007526 integrase; Provisional; Region: PRK09692 980514007527 Bacteriophage P4 integrase. P4-like integrases are found in temperate bacteriophages, integrative plasmids, pathogenicity and symbiosis islands, and other mobile genetic elements. They share the same fold in their catalytic domain and the overall...; Region: INT_P4; cd00801 980514007528 active site 980514007529 Int/Topo IB signature motif; other site 980514007530 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 980514007531 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 980514007532 Lysis protein S; Region: Lysis_S; pfam04971 980514007533 Phage-related protein, tail component [Function unknown]; Region: COG4733 980514007534 Putative phage tail protein; Region: Phage-tail_3; pfam13550 980514007535 Baculovirus polyhedron envelope protein, PEP, C terminus; Region: Baculo_PEP_C; pfam04513 980514007536 Phage-related protein, tail component [Function unknown]; Region: COG4723 980514007537 Phage-related protein, tail component [Function unknown]; Region: COG4723 980514007538 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains; Region: MPN_NLPC_P60; cd08073 980514007539 MPN+ (JAMM) motif; other site 980514007540 Zinc-binding site [ion binding]; other site 980514007541 NlpC/P60 family; Region: NLPC_P60; cl17555 980514007542 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 980514007543 Phage minor tail protein L; Region: Phage_tail_L; cl01908 980514007544 Phage minor tail protein; Region: Phage_min_tail; cl01940 980514007545 Phage-related minor tail protein [Function unknown]; Region: COG5281 980514007546 tape measure domain; Region: tape_meas_nterm; TIGR02675 980514007547 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 980514007548 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 980514007549 N-acetyl-D-glucosamine binding site [chemical binding]; other site 980514007550 catalytic residue [active] 980514007551 Uncharacterized proteins similar to Bacteroides ovatus 4320; Region: Bacova_04320_like; cd12190 980514007552 Uncharacterized protein family (UPF0150); Region: UPF0150; pfam03681 980514007553 Uncharacterized protein family (UPF0156); Region: RHH_2; cl17383 980514007554 Putative stress-responsive nuclear envelope protein; Region: Ish1; pfam10281 980514007555 Phage protein (N4 Gp49/phage Sf6 gene 66) family; Region: Phage_gp49_66; pfam13876 980514007556 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 980514007557 Domain of unknown function (DUF4055); Region: DUF4055; pfam13264 980514007558 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG5410 980514007559 Terminase-like family; Region: Terminase_6; pfam03237 980514007560 Phage-related terminase [General function prediction only]; Region: COG5362; cl02216 980514007561 Uncharacterized conserved protein (DUF2280); Region: DUF2280; pfam10045 980514007562 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 980514007563 membrane glycoprotein; Provisional; Region: PHA03332 980514007564 Protein of unknown function (DUF1064); Region: DUF1064; pfam06356 980514007565 HNH nucleases; Region: HNHc; smart00507 980514007566 active site 980514007567 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 980514007568 Active Sites [active] 980514007569 Bacteriophage replication protein O; Region: Phage_rep_O; cl04545 980514007570 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 980514007571 Ligand Binding Site [chemical binding]; other site 980514007572 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 980514007573 non-specific DNA binding site [nucleotide binding]; other site 980514007574 salt bridge; other site 980514007575 Predicted transcriptional regulator [Transcription]; Region: COG2932 980514007576 sequence-specific DNA binding site [nucleotide binding]; other site 980514007577 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 980514007578 Catalytic site [active] 980514007579 KTSC domain; Region: KTSC; pfam13619 980514007580 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 980514007581 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 980514007582 glutamine binding [chemical binding]; other site 980514007583 catalytic triad [active] 980514007584 Peptidase family M1; Region: Peptidase_M1; pfam01433 980514007585 Peptidase M1 Aminopeptidase N family incudes tricorn interacting factor F3, Endoplasmic reticulum aminopeptidase 1 (ERAP1), Aminopeptidase Q (APQ); Region: M1_APN_2; cd09601 980514007586 Zn binding site [ion binding]; other site 980514007587 Domain of unknown function (DUF3358); Region: DUF3358; pfam11838 980514007588 TonB-dependent Receptor Plug Domain; Region: Plug; pfam07715 980514007589 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 980514007590 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 980514007591 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 980514007592 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 980514007593 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 980514007594 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 980514007595 active site 980514007596 ribulose/triose binding site [chemical binding]; other site 980514007597 phosphate binding site [ion binding]; other site 980514007598 substrate (anthranilate) binding pocket [chemical binding]; other site 980514007599 product (indole) binding pocket [chemical binding]; other site 980514007600 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 980514007601 Smr domain; Region: Smr; pfam01713 980514007602 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 980514007603 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 980514007604 XdhC Rossmann domain; Region: XdhC_C; pfam13478 980514007605 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 980514007606 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 980514007607 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 980514007608 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 980514007609 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 980514007610 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 980514007611 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 980514007612 GTP cyclohydrolase I (GTP-CH-I) catalyzes the conversion of GTP into dihydroneopterin triphosphate. The enzyme product is the precursor of tetrahydrofolate in eubacteria, fungi, and plants and of the folate analogs in methanogenic bacteria. In...; Region: GTP_cyclohydro1; cd00642 980514007613 homodecamer interface [polypeptide binding]; other site 980514007614 GTP cyclohydrolase I; Provisional; Region: PLN03044 980514007615 active site 980514007616 putative catalytic site residues [active] 980514007617 zinc binding site [ion binding]; other site 980514007618 GTP-CH-I/GFRP interaction surface; other site 980514007619 Beta-lactamase class C and other penicillin binding proteins [Defense mechanisms]; Region: AmpC; COG1680 980514007620 beta-lactamase/D-alanine carboxypeptidase; Provisional; Region: ampC; PRK11289 980514007621 Domain of unknown function (DUF4105); Region: DUF4105; pfam13387 980514007622 Protein of unknown function (DUF3015); Region: DUF3015; pfam11220 980514007623 Protein of unknown function (DUF817); Region: DUF817; pfam05675 980514007624 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 980514007625 substrate binding site [chemical binding]; other site 980514007626 active site 980514007627 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 980514007628 Putative peptidoglycan-binding domain-containing protein [Cell envelope biogenesis, outer membrane]; Region: COG3409 980514007629 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 980514007630 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 980514007631 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 980514007632 4'-phosphopantetheinyl transferase superfamily; Region: ACPS; pfam01648 980514007633 Thioesterase domain; Region: Thioesterase; pfam00975 980514007634 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 980514007635 putative bacteriocin export ABC transporter, lactococcin 972 group; Region: L_ocin_972_ABC; TIGR03608 980514007636 Walker A/P-loop; other site 980514007637 ATP binding site [chemical binding]; other site 980514007638 Q-loop/lid; other site 980514007639 ABC transporter signature motif; other site 980514007640 Walker B; other site 980514007641 D-loop; other site 980514007642 H-loop/switch region; other site 980514007643 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 980514007644 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 980514007645 Walker A/P-loop; other site 980514007646 ATP binding site [chemical binding]; other site 980514007647 Q-loop/lid; other site 980514007648 ABC transporter signature motif; other site 980514007649 Walker B; other site 980514007650 D-loop; other site 980514007651 H-loop/switch region; other site 980514007652 histidine decarboxylase; Provisional; Region: PRK02769 980514007653 Aminotransferase class I and II; Region: Aminotran_1_2; pfam00155 980514007654 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 980514007655 catalytic residue [active] 980514007656 Isochorismatase, also known as 2,3 dihydro-2,3 dihydroxybenzoate synthase, catalyses the conversion of isochorismate, in the presence of water, to 2,3-dihydroxybenzoate and pyruvate, via the hydrolysis of a vinyl ether, an uncommon reaction in biological...; Region: isochorismatase; cd01013 980514007657 hydrophobic substrate binding pocket; other site 980514007658 Isochorismatase family; Region: Isochorismatase; pfam00857 980514007659 active site 980514007660 conserved cis-peptide bond; other site 980514007661 Aryl carrier domain [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3433 980514007662 enterobactin synthase subunit E; Provisional; Region: entE; PRK10946 980514007663 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 980514007664 acyl-activating enzyme (AAE) consensus motif; other site 980514007665 active site 980514007666 AMP binding site [chemical binding]; other site 980514007667 substrate binding site [chemical binding]; other site 980514007668 Condensation domain; Region: Condensation; pfam00668 980514007669 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 980514007670 Nonribosomal peptide synthase; Region: NRPS; pfam08415 980514007671 Condensation domain; Region: Condensation; pfam00668 980514007672 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 980514007673 Nonribosomal peptide synthase; Region: NRPS; pfam08415 980514007674 Lysine/ornithine N-monooxygenase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: IucD; COG3486 980514007675 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 980514007676 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 980514007677 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 980514007678 N-terminal plug; other site 980514007679 ligand-binding site [chemical binding]; other site 980514007680 ABC-type enterochelin transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: CeuA; COG4607 980514007681 Siderophore binding protein FatB. These proteins have been shown to function as ABC-type initial receptors in the siderophore-mediated iron uptake in some eubacterial species. They belong to the TroA superfamily of periplasmic metal binding proteins...; Region: FatB; cd01140 980514007682 putative ligand binding residues [chemical binding]; other site 980514007683 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 980514007684 Walker A/P-loop; other site 980514007685 ATP binding site [chemical binding]; other site 980514007686 ABC transporter; Region: ABC_tran; pfam00005 980514007687 Q-loop/lid; other site 980514007688 ABC transporter signature motif; other site 980514007689 Walker B; other site 980514007690 D-loop; other site 980514007691 H-loop/switch region; other site 980514007692 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 980514007693 ABC-ATPase subunit interface; other site 980514007694 dimer interface [polypeptide binding]; other site 980514007695 putative PBP binding regions; other site 980514007696 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 980514007697 ABC-ATPase subunit interface; other site 980514007698 dimer interface [polypeptide binding]; other site 980514007699 putative PBP binding regions; other site 980514007700 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 980514007701 Condensation domain; Region: Condensation; pfam00668 980514007702 Non-ribosomal peptide synthetase modules and related proteins [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntF; COG1020 980514007703 The adenylation domain of nonribosomal peptide synthetases (NRPS), including Streptoalloteichus tallysomycin biosynthesis genes; Region: A_NRPS_TlmIV_like; cd12114 980514007704 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 980514007705 acyl-activating enzyme (AAE) consensus motif; other site 980514007706 AMP binding site [chemical binding]; other site 980514007707 Siderophore-interacting protein [Inorganic ion transport and metabolism]; Region: ViuB; COG2375 980514007708 Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from...; Region: siderophore_interacting; cd06193 980514007709 FAD binding pocket [chemical binding]; other site 980514007710 FAD binding motif [chemical binding]; other site 980514007711 phosphate binding motif [ion binding]; other site 980514007712 NAD binding pocket [chemical binding]; other site 980514007713 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2964 980514007714 YheO-like PAS domain; Region: PAS_6; pfam08348 980514007715 HTH domain; Region: HTH_22; pfam13309 980514007716 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 980514007717 catalytic residue [active] 980514007718 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 980514007719 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 980514007720 Pirin-related protein [General function prediction only]; Region: COG1741 980514007721 Pirin; Region: Pirin; pfam02678 980514007722 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 980514007723 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 980514007724 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 980514007725 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 980514007726 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 980514007727 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 980514007728 Medium chain dehydrogenases/reductase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR9; cd08274 980514007729 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 980514007730 putative NAD(P) binding site [chemical binding]; other site 980514007731 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 980514007732 Enolase-superfamily, characterized by the presence of an enolate anion intermediate which is generated by abstraction of the alpha-proton of the carboxylate substrate by an active site residue and is stabilized by coordination to the essential Mg2+ ion; Region: enolase_like; cl17188 980514007733 metal binding site [ion binding]; metal-binding site 980514007734 substrate binding pocket [chemical binding]; other site 980514007735 Sugar (and other) transporter; Region: Sugar_tr; pfam00083 980514007736 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 980514007737 putative substrate translocation pore; other site 980514007738 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 980514007739 Antitoxin of toxin-antitoxin stability system N-terminal; Region: RelB_N; pfam12910 980514007740 EamA-like transporter family; Region: EamA; pfam00892 980514007741 EamA-like transporter family; Region: EamA; pfam00892 980514007742 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 980514007743 ethanolamine utilization protein EutQ; Provisional; Region: PRK15457 980514007744 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 980514007745 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 980514007746 Rubredoxin [Energy production and conversion]; Region: COG1773 980514007747 Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are...; Region: rubredoxin; cd00730 980514007748 iron binding site [ion binding]; other site 980514007749 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 980514007750 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 980514007751 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 980514007752 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 980514007753 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 980514007754 NAD(P) binding site [chemical binding]; other site 980514007755 catalytic residues [active] 980514007756 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 980514007757 Rieske non-heme iron oxygenase (RO) family, N-terminal Rieske domain of the oxygenase alpha subunit; The RO family comprise a large class of aromatic ring-hydroxylating dioxygenases found predominantly in microorganisms. These enzymes enable...; Region: Rieske_RO_Alpha_N; cd03469 980514007758 [2Fe-2S] cluster binding site [ion binding]; other site 980514007759 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 980514007760 alpha subunit interface [polypeptide binding]; other site 980514007761 active site 980514007762 substrate binding site [chemical binding]; other site 980514007763 Fe binding site [ion binding]; other site 980514007764 BCCT family transporter; Region: BCCT; pfam02028 980514007765 BCCT family transporter; Region: BCCT; pfam02028 980514007766 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 980514007767 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514007768 The C-terminal substrate domain of LysR-type GcdR, TrPI, HvR and beta-lactamase regulators, and that of other closely related homologs; contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_TrpI_HvrB_AmpR_like; cd08432 980514007769 dimerization interface [polypeptide binding]; other site 980514007770 substrate binding pocket [chemical binding]; other site 980514007771 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 980514007772 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 980514007773 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 980514007774 tetrameric interface [polypeptide binding]; other site 980514007775 NAD binding site [chemical binding]; other site 980514007776 catalytic residues [active] 980514007777 Protein of unknown function (DUF861); Region: Cupin_3; pfam05899 980514007778 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 980514007779 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 980514007780 Purine catabolism regulatory protein-like family; Region: PucR; pfam07905 980514007781 PucR C-terminal helix-turn-helix domain; Region: HTH_30; pfam13556 980514007782 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 980514007783 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 980514007784 Phage antirepressor protein KilAC domain; Region: ANT; cl01462 980514007785 Protein of unknown function (DUF466); Region: DUF466; pfam04328 980514007786 carbon starvation protein A; Provisional; Region: PRK15015 980514007787 Carbon starvation protein CstA; Region: CstA; pfam02554 980514007788 C-terminal domain on CstA (DUF4161); Region: DUF4161; pfam13722 980514007789 elongation factor P; Validated; Region: PRK00529 980514007790 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 980514007791 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 980514007792 RNA binding site [nucleotide binding]; other site 980514007793 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 980514007794 RNA binding site [nucleotide binding]; other site 980514007795 Radical SAM superfamily; Region: Radical_SAM; pfam04055 980514007796 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 980514007797 FeS/SAM binding site; other site 980514007798 PAS domain S-box; Region: sensory_box; TIGR00229 980514007799 EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second...; Region: EAL; cl00290 980514007800 50S ribosomal protein L31; Reviewed; Region: rpmE; PRK00019 980514007801 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 980514007802 SBF-like CPA transporter family (DUF4137); Region: DUF4137; pfam13593 980514007803 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 980514007804 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 980514007805 dimer interface [polypeptide binding]; other site 980514007806 active site 980514007807 glutathione binding site [chemical binding]; other site 980514007808 muropeptide transporter; Validated; Region: ampG; cl17669 980514007809 muropeptide transporter; Validated; Region: ampG; cl17669 980514007810 muropeptide transporter; Validated; Region: ampG; cl17669 980514007811 AAA domain; Region: AAA_32; pfam13654 980514007812 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 980514007813 primary dimer interface [polypeptide binding]; other site 980514007814 lon-related putative ATP-dependent protease; Region: lon_rel; TIGR00764 980514007815 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 980514007816 Transcriptional regulator [Transcription]; Region: LysR; COG0583 980514007817 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514007818 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 980514007819 putative effector binding pocket; other site 980514007820 dimerization interface [polypeptide binding]; other site 980514007821 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 980514007822 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 980514007823 Peptidase family M23; Region: Peptidase_M23; pfam01551 980514007824 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 980514007825 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 980514007826 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 980514007827 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 980514007828 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 980514007829 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 980514007830 trimer interface [polypeptide binding]; other site 980514007831 putative metal binding site [ion binding]; other site 980514007832 Contains a crystal structure of the Nudix hydrolase from Nitrosomonas europaea, which has an unknown function. In general, members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes...; Region: Nudix_Hydrolase_2; cd03675 980514007833 nudix motif; other site 980514007834 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 980514007835 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 980514007836 putative lysogenization regulator; Reviewed; Region: PRK00218 980514007837 adenylosuccinate lyase; Provisional; Region: PRK09285 980514007838 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 980514007839 tetramer interface [polypeptide binding]; other site 980514007840 active site 980514007841 Predicted membrane protein (DUF2238); Region: DUF2238; pfam09997 980514007842 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 980514007843 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 980514007844 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 980514007845 tandem repeat interface [polypeptide binding]; other site 980514007846 oligomer interface [polypeptide binding]; other site 980514007847 active site residues [active] 980514007848 phosphate transporter ATP-binding protein; Provisional; Region: PRK14235 980514007849 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 980514007850 Walker A/P-loop; other site 980514007851 ATP binding site [chemical binding]; other site 980514007852 Q-loop/lid; other site 980514007853 ABC transporter signature motif; other site 980514007854 Walker B; other site 980514007855 D-loop; other site 980514007856 H-loop/switch region; other site 980514007857 Domain of unknown function (DUF3333); Region: DUF3333; pfam11812 980514007858 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstA; COG0581 980514007859 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 980514007860 dimer interface [polypeptide binding]; other site 980514007861 conserved gate region; other site 980514007862 putative PBP binding loops; other site 980514007863 ABC-ATPase subunit interface; other site 980514007864 Phosphate ATP-binding cassette transporter; Region: DUF3708; pfam12501 980514007865 ABC-type phosphate transport system, permease component [Inorganic ion transport and metabolism]; Region: PstC; COG0573 980514007866 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 980514007867 dimer interface [polypeptide binding]; other site 980514007868 conserved gate region; other site 980514007869 putative PBP binding loops; other site 980514007870 ABC-ATPase subunit interface; other site 980514007871 ABC-type phosphate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: PstS; COG0226 980514007872 aromatic amino acid transporter; Provisional; Region: PRK10238 980514007873 Pyruvate decarboxylase and related thiamine pyrophosphate-requiring enzymes [Carbohydrate transport and metabolism / Coenzyme metabolism / General function prediction only]; Region: COG3961 980514007874 Pyrimidine (PYR) binding domain of pyruvate decarboxylase (PDC), indolepyruvate decarboxylase (IPDC) and related proteins; Region: TPP_PYR_PDC_IPDC_like; cd07038 980514007875 dimer interface [polypeptide binding]; other site 980514007876 PYR/PP interface [polypeptide binding]; other site 980514007877 TPP binding site [chemical binding]; other site 980514007878 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 980514007879 Thiamine pyrophosphate (TPP) family, PDC_IPDC subfamily, TPP-binding module; composed of proteins similar to pyruvate decarboxylase (PDC) and indolepyruvate decarboxylase (IPDC). PDC, a key enzyme in alcoholic fermentation, catalyzes the conversion of...; Region: TPP_PDC_IPDC; cd02005 980514007880 TPP-binding site [chemical binding]; other site 980514007881 dimer interface [polypeptide binding]; other site 980514007882 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 980514007883 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 980514007884 AsnC family; Region: AsnC_trans_reg; pfam01037 980514007885 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 980514007886 Streptomyces aureofaciens putative aldehyde dehydrogenase AldA (AAD23400)-like; Region: ALDH_AldA-AAD23400; cd07106 980514007887 NAD(P) binding site [chemical binding]; other site 980514007888 catalytic residues [active] 980514007889 DOPA decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to DOPA/tyrosine decarboxylase (DDC), histidine decarboxylase (HDC), and...; Region: DOPA_deC_like; cd06450 980514007890 pyridoxal 5'-phosphate binding site [chemical binding]; other site 980514007891 catalytic residue [active] 980514007892 diaminobutyrate--2-oxoglutarate aminotransferase; Provisional; Region: PRK06931 980514007893 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 980514007894 inhibitor-cofactor binding pocket; inhibition site 980514007895 pyridoxal 5'-phosphate binding site [chemical binding]; other site 980514007896 catalytic residue [active] 980514007897 Protein of unknown function (DUF541); Region: SIMPL; cl01077 980514007898 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 980514007899 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 980514007900 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 980514007901 CoenzymeA binding site [chemical binding]; other site 980514007902 subunit interaction site [polypeptide binding]; other site 980514007903 PHB binding site; other site 980514007904 Fatty acid desaturase; Region: FA_desaturase; pfam00487 980514007905 The Delta6 Fatty Acid Desaturase (Delta6-FADS)-like CD includes the integral-membrane enzymes: delta-4, delta-5, delta-6, delta-8, delta-8-sphingolipid, and delta-11 desaturases found in vertebrates, higher plants, fungi, and bacteria. These desaturases...; Region: Delta6-FADS-like; cd03506 980514007906 putative di-iron ligands [ion binding]; other site 980514007907 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron...; Region: FNR_iron_sulfur_binding_2; cd06216 980514007908 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 980514007909 FAD binding pocket [chemical binding]; other site 980514007910 FAD binding motif [chemical binding]; other site 980514007911 phosphate binding motif [ion binding]; other site 980514007912 beta-alpha-beta structure motif; other site 980514007913 NAD binding pocket [chemical binding]; other site 980514007914 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 980514007915 catalytic loop [active] 980514007916 iron binding site [ion binding]; other site 980514007917 DNA-binding transcriptional repressor FabR; Provisional; Region: PRK11202 980514007918 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 980514007919 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; cl00465 980514007920 ATP-dependent helicase HepA; Validated; Region: PRK04914 980514007921 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 980514007922 ATP binding site [chemical binding]; other site 980514007923 putative Mg++ binding site [ion binding]; other site 980514007924 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 980514007925 nucleotide binding region [chemical binding]; other site 980514007926 ATP-binding site [chemical binding]; other site 980514007927 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 980514007928 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 980514007929 active site 980514007930 Phosphopantetheine attachment site; Region: PP-binding; cl09936 980514007931 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 980514007932 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 980514007933 inhibitor-cofactor binding pocket; inhibition site 980514007934 pyridoxal 5'-phosphate binding site [chemical binding]; other site 980514007935 catalytic residue [active] 980514007936 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 980514007937 thiamine phosphate binding site [chemical binding]; other site 980514007938 active site 980514007939 pyrophosphate binding site [ion binding]; other site 980514007940 Protein of unknown function (DUF962); Region: DUF962; pfam06127 980514007941 Uncharacterized conserved protein [Function unknown]; Region: COG3025 980514007942 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 980514007943 putative active site [active] 980514007944 putative metal binding residues [ion binding]; other site 980514007945 signature motif; other site 980514007946 putative triphosphate binding site [ion binding]; other site 980514007947 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 980514007948 Protein of unknown function (DUF3144); Region: DUF3144; pfam11342 980514007949 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 980514007950 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 980514007951 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 980514007952 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 980514007953 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 980514007954 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 980514007955 Predicted Na+/dicarboxylate symporter [General function prediction only]; Region: COG1823 980514007956 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 980514007957 Transcriptional regulator [Transcription]; Region: LysR; COG0583 980514007958 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514007959 The C-terminal substrate binding domain of LysR-type transcriptional regulators, YofA and SoxR, contains the type 2 periplasmic binding fold; Region: PBP2_YofA_SoxR_like; cd08442 980514007960 putative dimerization interface [polypeptide binding]; other site 980514007961 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 980514007962 Major Facilitator Superfamily; Region: MFS_1; pfam07690 980514007963 putative substrate translocation pore; other site 980514007964 isocitrate dehydrogenase; Validated; Region: PRK06451 980514007965 isocitrate dehydrogenase; Reviewed; Region: PRK07006 980514007966 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 980514007967 pseudouridine synthase; Region: TIGR00093 980514007968 active site 980514007969 Monomeric isocitrate dehydrogenase [Energy production and conversion]; Region: Icd; COG2838 980514007970 Monomeric isocitrate dehydrogenase; Region: IDH; cl15383 980514007971 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 980514007972 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 980514007973 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 980514007974 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 980514007975 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 980514007976 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 980514007977 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 980514007978 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 980514007979 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 980514007980 Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]; Region: PhrB; COG0415 980514007981 DNA photolyase; Region: DNA_photolyase; pfam00875 980514007982 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 980514007983 CESA_like is the cellulose synthase superfamily; Region: CESA_like; cd06423 980514007984 DXD motif; other site 980514007985 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 980514007986 UDP-N-acetylglucosamine 2-epimerase [Cell envelope biogenesis, outer membrane]; Region: WecB; COG0381 980514007987 Bacterial members of the UDP-N-Acetylglucosamine (GlcNAc) 2-Epimerase family are known to catalyze the reversible interconversion of UDP-GlcNAc and UDP-N-acetylmannosamine (UDP-ManNAc). The enzyme serves to produce an activated form of ManNAc residues; Region: GT1_UDP-GlcNAc_2-Epimerase; cd03786 980514007988 active site 980514007989 homodimer interface [polypeptide binding]; other site 980514007990 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 980514007991 TPR motif; other site 980514007992 binding surface 980514007993 Nodulin-21 and CCC1-related protein family; Region: Nodulin-21_like_1; cd02432 980514007994 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 980514007995 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 980514007996 FMN binding site [chemical binding]; other site 980514007997 substrate binding site [chemical binding]; other site 980514007998 putative catalytic residue [active] 980514007999 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 980514008000 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 980514008001 FMN binding site [chemical binding]; other site 980514008002 active site 980514008003 catalytic residues [active] 980514008004 substrate binding site [chemical binding]; other site 980514008005 Protein of unknown function (DUF1615); Region: DUF1615; pfam07759 980514008006 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 980514008007 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 980514008008 gamma-glutamyl kinase; Provisional; Region: PRK05429 980514008009 AAK_G5K_ProB: Glutamate-5-kinase (G5K) catalyzes glutamate-dependent ATP cleavage; G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, in the first and controlling step of proline (and, in mammals, ornithine)...; Region: AAK_G5K_ProB; cd04242 980514008010 nucleotide binding site [chemical binding]; other site 980514008011 homotetrameric interface [polypeptide binding]; other site 980514008012 putative phosphate binding site [ion binding]; other site 980514008013 putative allosteric binding site; other site 980514008014 PUA domain; Region: PUA; pfam01472 980514008015 GTPase CgtA; Reviewed; Region: obgE; PRK12298 980514008016 GTP1/OBG; Region: GTP1_OBG; pfam01018 980514008017 Obg GTPase; Region: Obg; cd01898 980514008018 G1 box; other site 980514008019 GTP/Mg2+ binding site [chemical binding]; other site 980514008020 Switch I region; other site 980514008021 G2 box; other site 980514008022 G3 box; other site 980514008023 Switch II region; other site 980514008024 G4 box; other site 980514008025 G5 box; other site 980514008026 glyceraldehyde-3-phosphate dehydrogenase; Reviewed; Region: PRK08289 980514008027 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 980514008028 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 980514008029 Predicted permeases [General function prediction only]; Region: RarD; COG2962 980514008030 Bacterial lipocalin [Cell envelope biogenesis, outer membrane]; Region: Blc; COG3040 980514008031 Lipocalin-like domain; Region: Lipocalin_2; pfam08212 980514008032 excinuclease ABC subunit B; Provisional; Region: PRK05298 980514008033 Myosin and Kinesin motor domain. These ATPases belong to the P-loop NTPase family and provide the driving force in myosin and kinesin mediated processes; Region: Motor_domain; cl00286 980514008034 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 980514008035 ATP-binding site [chemical binding]; other site 980514008036 ATP binding site [chemical binding]; other site 980514008037 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 980514008038 nucleotide binding region [chemical binding]; other site 980514008039 ATP-binding site [chemical binding]; other site 980514008040 Ultra-violet resistance protein B; Region: UvrB; pfam12344 980514008041 UvrB/uvrC motif; Region: UVR; pfam02151 980514008042 hypothetical protein; Region: PHA00684 980514008043 PAS domain; Region: PAS_9; pfam13426 980514008044 PAS domain; Region: PAS_9; pfam13426 980514008045 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 980514008046 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 980514008047 metal binding site [ion binding]; metal-binding site 980514008048 active site 980514008049 I-site; other site 980514008050 aspartate aminotransferase; Provisional; Region: PRK05764 980514008051 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 980514008052 pyridoxal 5'-phosphate binding site [chemical binding]; other site 980514008053 homodimer interface [polypeptide binding]; other site 980514008054 catalytic residue [active] 980514008055 Uncharacterized conserved protein [Function unknown]; Region: COG3791 980514008056 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 980514008057 CoenzymeA binding site [chemical binding]; other site 980514008058 subunit interaction site [polypeptide binding]; other site 980514008059 PHB binding site; other site 980514008060 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 980514008061 malonic semialdehyde reductase; Provisional; Region: PRK10538 980514008062 NAD(P) binding site [chemical binding]; other site 980514008063 active site 980514008064 MiaE tRNA-modifying nonheme diiron monooxygenase, ferritin-like diiron-binding domain; Region: MiaE; cd07910 980514008065 active site 980514008066 dinuclear metal binding site [ion binding]; other site 980514008067 dimerization interface [polypeptide binding]; other site 980514008068 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 980514008069 active site 980514008070 hydrophilic channel; other site 980514008071 dimerization interface [polypeptide binding]; other site 980514008072 catalytic residues [active] 980514008073 active site lid [active] 980514008074 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 980514008075 Recombination protein O N terminal; Region: RecO_N; pfam11967 980514008076 Recombination protein O C terminal; Region: RecO_C; pfam02565 980514008077 GTPase Era; Reviewed; Region: era; PRK00089 980514008078 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 980514008079 G1 box; other site 980514008080 GTP/Mg2+ binding site [chemical binding]; other site 980514008081 Switch I region; other site 980514008082 G2 box; other site 980514008083 Switch II region; other site 980514008084 G3 box; other site 980514008085 G4 box; other site 980514008086 G5 box; other site 980514008087 KH domain; Region: KH_2; pfam07650 980514008088 ribonuclease III; Reviewed; Region: rnc; PRK00102 980514008089 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 980514008090 metal binding site [ion binding]; metal-binding site 980514008091 Double-stranded RNA binding motif. Binding is not sequence specific but is highly specific for double stranded RNA. Found in a variety of proteins including dsRNA dependent protein kinase PKR, RNA helicases, Drosophila staufen protein, E. coli RNase III; Region: DSRM; cd00048 980514008092 dsRNA binding site [nucleotide binding]; other site 980514008093 signal peptidase I, bacterial type; Region: sigpep_I_bact; TIGR02227 980514008094 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 980514008095 Catalytic site [active] 980514008096 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 980514008097 GTP-binding protein LepA; Provisional; Region: PRK05433 980514008098 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 980514008099 G1 box; other site 980514008100 putative GEF interaction site [polypeptide binding]; other site 980514008101 GTP/Mg2+ binding site [chemical binding]; other site 980514008102 Switch I region; other site 980514008103 G2 box; other site 980514008104 G3 box; other site 980514008105 Switch II region; other site 980514008106 G4 box; other site 980514008107 G5 box; other site 980514008108 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 980514008109 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 980514008110 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 980514008111 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 980514008112 active site 980514008113 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 980514008114 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 980514008115 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 980514008116 protein binding site [polypeptide binding]; other site 980514008117 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 980514008118 protein binding site [polypeptide binding]; other site 980514008119 L-aspartate oxidase; Provisional; Region: PRK09077 980514008120 L-aspartate oxidase; Provisional; Region: PRK06175 980514008121 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 980514008122 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 980514008123 CoenzymeA binding site [chemical binding]; other site 980514008124 subunit interaction site [polypeptide binding]; other site 980514008125 PHB binding site; other site 980514008126 Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor. TMPK represents the rate-limiting step...; Region: TMPK; cd01672 980514008127 thymidylate kinase; Validated; Region: tmk; PRK00698 980514008128 TMP-binding site; other site 980514008129 ATP-binding site [chemical binding]; other site 980514008130 YceG-like family; Region: YceG; pfam02618 980514008131 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 980514008132 dimerization interface [polypeptide binding]; other site 980514008133 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 980514008134 ADCL_like: 4-Amino-4-deoxychorismate lyase: is a member of the fold-type IV of PLP dependent enzymes that converts 4-amino-4-deoxychorismate (ADC) to p-aminobenzoate and pyruvate. Based on the information available from the crystal structure, most...; Region: ADCL_like; cd01559 980514008135 pyridoxal 5'-phosphate binding site [chemical binding]; other site 980514008136 catalytic residue [active] 980514008137 Bacterial periplasmic transport systems use membrane-bound complexes and substrate-bound, membrane-associated, periplasmic binding proteins (PBPs) to transport a wide variety of substrates, such as, amino acids, peptides, sugars, vitamins and inorganic...; Region: PBPb; cd00134 980514008138 substrate binding pocket [chemical binding]; other site 980514008139 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 980514008140 membrane-bound complex binding site; other site 980514008141 hinge residues; other site 980514008142 Serine hydrolase; Region: Ser_hydrolase; pfam06821 980514008143 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 980514008144 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 980514008145 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 980514008146 dimer interface [polypeptide binding]; other site 980514008147 conserved gate region; other site 980514008148 putative PBP binding loops; other site 980514008149 ABC-ATPase subunit interface; other site 980514008150 sulfate transport protein; Provisional; Region: cysT; CHL00187 980514008151 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cd06261 980514008152 dimer interface [polypeptide binding]; other site 980514008153 conserved gate region; other site 980514008154 putative PBP binding loops; other site 980514008155 ABC-ATPase subunit interface; other site 980514008156 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 980514008157 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 980514008158 Walker A/P-loop; other site 980514008159 ATP binding site [chemical binding]; other site 980514008160 Q-loop/lid; other site 980514008161 ABC transporter signature motif; other site 980514008162 Walker B; other site 980514008163 D-loop; other site 980514008164 H-loop/switch region; other site 980514008165 TOBE-like domain; Region: TOBE_3; pfam12857 980514008166 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12683 980514008167 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514008168 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 980514008169 substrate binding site [chemical binding]; other site 980514008170 dimerization interface [polypeptide binding]; other site 980514008171 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 980514008172 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 980514008173 active site 980514008174 substrate binding site [chemical binding]; other site 980514008175 trimer interface [polypeptide binding]; other site 980514008176 CoA binding site [chemical binding]; other site 980514008177 putative 7-cyano-7-deazaguanosine (preQ0) biosynthesis protein QueE, gammaproteobacterial type; Region: rSAM_QueE_gams; TIGR04349 980514008178 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 980514008179 FeS/SAM binding site; other site 980514008180 ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large (> 1000 genes) prokaryotic genome. In...; Region: ExsB; cd01995 980514008181 Ligand Binding Site [chemical binding]; other site 980514008182 Predicted ATPases of PP-loop superfamily [General function prediction only]; Region: COG2102 980514008183 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_IV; cd01994 980514008184 Ligand Binding Site [chemical binding]; other site 980514008185 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 980514008186 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 980514008187 catalytic triad [active] 980514008188 SCP_bacterial: SCP-like extracellular protein domain, as found in bacteria and archaea. The wider family of SCP containing proteins includes plant pathogenesis-related protein 1 (PR-1), CRISPs, mammalian cysteine-rich secretory proteins, and allergen 5...; Region: SCP_bacterial; cd05379 980514008189 Uncharacterized protein with SCP/PR1 domains [Function unknown]; Region: COG2340 980514008190 nicotinamide-nucleotide adenylyltransferase; Provisional; Region: PRK13793 980514008191 active site 980514008192 nucleotide binding site [chemical binding]; other site 980514008193 HIGH motif; other site 980514008194 KMSKS motif; other site 980514008195 enoyl-CoA hydratase; Provisional; Region: PRK06688 980514008196 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 980514008197 substrate binding site [chemical binding]; other site 980514008198 oxyanion hole (OAH) forming residues; other site 980514008199 trimer interface [polypeptide binding]; other site 980514008200 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3323 980514008201 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 980514008202 putative substrate translocation pore; other site 980514008203 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 980514008204 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 980514008205 dimerization interface [polypeptide binding]; other site 980514008206 ATP binding site [chemical binding]; other site 980514008207 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 980514008208 dimerization interface [polypeptide binding]; other site 980514008209 ATP binding site [chemical binding]; other site 980514008210 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 980514008211 putative active site [active] 980514008212 catalytic triad [active] 980514008213 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01096 980514008214 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 980514008215 Zn2+ binding site [ion binding]; other site 980514008216 Mg2+ binding site [ion binding]; other site 980514008217 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 980514008218 RuvA N terminal domain; Region: RuvA_N; pfam01330 980514008219 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 980514008220 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 980514008221 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 980514008222 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 980514008223 Walker A motif; other site 980514008224 ATP binding site [chemical binding]; other site 980514008225 Walker B motif; other site 980514008226 arginine finger; other site 980514008227 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 980514008228 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like2; cd05667 980514008229 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 980514008230 metal binding site [ion binding]; metal-binding site 980514008231 putative dimer interface [polypeptide binding]; other site 980514008232 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 980514008233 active site 980514008234 TolQ protein; Region: tolQ; TIGR02796 980514008235 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 980514008236 TolR protein; Region: tolR; TIGR02801 980514008237 TolA protein; Region: tolA_full; TIGR02794 980514008238 TonB C terminal; Region: TonB_2; pfam13103 980514008239 translocation protein TolB; Provisional; Region: tolB; PRK04922 980514008240 TolB amino-terminal domain; Region: TolB_N; pfam04052 980514008241 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 980514008242 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 980514008243 putative outer membrane lipoprotein; Provisional; Region: PRK09967 980514008244 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 980514008245 ligand binding site [chemical binding]; other site 980514008246 fructose-1,6-bisphosphatase family protein; Region: PLN02628 980514008247 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 980514008248 AMP binding site [chemical binding]; other site 980514008249 metal binding site [ion binding]; metal-binding site 980514008250 active site 980514008251 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 980514008252 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 980514008253 RNA polymerase factor sigma-70; Validated; Region: PRK09047 980514008254 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 980514008255 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 980514008256 DNA binding residues [nucleotide binding] 980514008257 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 980514008258 Acinetobacter rhombotarget A; Region: GlyGly_RbtA; TIGR04212 980514008259 CSLREA domain; Region: CSLREA_Nterm; TIGR04214 980514008260 Acinetobacter rhombotarget A; Region: GlyGly_RbtA; TIGR04212 980514008261 CSLREA domain; Region: CSLREA_Nterm; TIGR04214 980514008262 Mor transcription activator family; Region: Mor; cl02360 980514008263 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 980514008264 Protein of unknown function (DUF2786); Region: DUF2786; pfam10979 980514008265 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 980514008266 IHF dimer interface [polypeptide binding]; other site 980514008267 IHF - DNA interface [nucleotide binding]; other site 980514008268 Bacteriophage Mu Gam like protein; Region: Phage_Mu_Gam; pfam07352 980514008269 Protein of unknown function (DUF2752); Region: DUF2752; pfam10825 980514008270 Animal heme peroxidases and related proteins; Region: An_peroxidase_like; cl14561 980514008271 phage/conjugal plasmid C-4 type zinc finger protein, TraR family; Region: C4_traR_proteo; TIGR02419 980514008272 Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]; Region: ExeA; COG3267 980514008273 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 980514008274 Walker A/P-loop; other site 980514008275 ATP binding site [chemical binding]; other site 980514008276 Integrase core domain; Region: rve; pfam00665 980514008277 Protein of unknown function (DUF3102); Region: DUF3102; pfam11300 980514008278 Transcriptional regulator [Transcription]; Region: IclR; COG1414 980514008279 phage-associated protein, BcepMu gp16 family; Region: BcepMu_gp16; TIGR04111 980514008280 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 980514008281 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 980514008282 non-specific DNA binding site [nucleotide binding]; other site 980514008283 salt bridge; other site 980514008284 sequence-specific DNA binding site [nucleotide binding]; other site 980514008285 Predicted transcriptional regulator [Transcription]; Region: COG2932 980514008286 Peptidase S24 LexA-like proteins are involved in the SOS response leading to the repair of single-stranded DNA within the bacterial cell. This family includes: the lambda repressor CI/C2 family and related bacterial prophage repressor proteins; LexA (EC...; Region: S24_LexA-like; cd06529 980514008287 Catalytic site [active] 980514008288 Lysozyme family protein [General function prediction only]; Region: zliS; COG3926 980514008289 Glycosyl hydrolase 108; Region: Glyco_hydro_108; pfam05838 980514008290 Predicted Peptidoglycan domain; Region: PG_binding_3; pfam09374 980514008291 Protein of unknown function (DUF3486); Region: DUF3486; pfam11985 980514008292 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 980514008293 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 980514008294 Protein of unknown function (DUF935); Region: DUF935; pfam06074 980514008295 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 980514008296 Uncharacterized protein, homolog of phage Mu protein gp30 [Function unknown]; Region: COG2369 980514008297 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 980514008298 Phage virion morphogenesis family; Region: Phage_tail_S; cl02089 980514008299 Mu-like prophage I protein; Region: Mu-like_Pro; pfam10123 980514008300 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 980514008301 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 980514008302 Mu-like prophage major head subunit gpT; Region: Mu-like_gpT; cl01826 980514008303 Protein of unknown function (DUF1320); Region: DUF1320; cl01818 980514008304 Domain of unknown function (DUF1834); Region: DUF1834; pfam08873 980514008305 Mu-like prophage tail sheath protein gpL [General function prediction only]; Region: COG4386 980514008306 Sialidases or neuraminidases function to bind and hydrolyze terminal sialic acid residues from various glycoconjugates as well as playing roles in pathogenesis, bacterial nutrition and cellular interactions. They have a six-bladed, beta-propeller fold...; Region: Sialidase; cd00260 980514008307 catalytic site [active] 980514008308 Asp-box motif; other site 980514008309 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 980514008310 Phage-related minor tail protein; Region: PhageMin_Tail; pfam10145 980514008311 Mu-like prophage DNA circulation protein [General function prediction only]; Region: COG4228 980514008312 DNA circulation protein N-terminus; Region: DNA_circ_N; pfam07157 980514008313 Mu-like prophage tail protein gpP [General function prediction only]; Region: COG4379 980514008314 Bacteriophage Mu Gp45 protein; Region: Phage_Mu_Gp45; cl15410 980514008315 Phage protein GP46; Region: GP46; cl01814 980514008316 Baseplate J-like protein; Region: Baseplate_J; cl01294 980514008317 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; cl01542 980514008318 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 980514008319 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 980514008320 Walker A motif; other site 980514008321 ATP binding site [chemical binding]; other site 980514008322 Walker B motif; other site 980514008323 arginine finger; other site 980514008324 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 980514008325 Domain of unknown function DUF20; Region: UPF0118; pfam01594 980514008326 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 980514008327 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 980514008328 dimerization interface [polypeptide binding]; other site 980514008329 putative ATP binding site [chemical binding]; other site 980514008330 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 980514008331 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 980514008332 active site 980514008333 substrate binding site [chemical binding]; other site 980514008334 cosubstrate binding site; other site 980514008335 catalytic site [active] 980514008336 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 980514008337 Periplasmic serine proteases (ClpP class) [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: SppA; COG0616 980514008338 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 980514008339 tandem repeat interface [polypeptide binding]; other site 980514008340 oligomer interface [polypeptide binding]; other site 980514008341 active site residues [active] 980514008342 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 980514008343 putative acyl-acceptor binding pocket; other site 980514008344 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 980514008345 Predicted membrane metal-binding protein [General function prediction only]; Region: ComEC; COG0658 980514008346 Competence protein; Region: Competence; pfam03772 980514008347 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 980514008348 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 980514008349 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 980514008350 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 980514008351 Walker A/P-loop; other site 980514008352 ATP binding site [chemical binding]; other site 980514008353 Q-loop/lid; other site 980514008354 ABC transporter signature motif; other site 980514008355 Walker B; other site 980514008356 D-loop; other site 980514008357 H-loop/switch region; other site 980514008358 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 980514008359 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 980514008360 FtsX-like permease family; Region: FtsX; pfam02687 980514008361 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 980514008362 EamA-like transporter family; Region: EamA; pfam00892 980514008363 Uncharacterized BCR, YaiI/YqxD family COG1671; Region: DUF188; pfam02639 980514008364 Phosphoserine aminotransferase (PSAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major group in this CD corresponds to phosphoserine aminotransferase (PSAT). PSAT is active as...; Region: PSAT_like; cd00611 980514008365 homodimer interface [polypeptide binding]; other site 980514008366 substrate-cofactor binding pocket; other site 980514008367 pyridoxal 5'-phosphate binding site [chemical binding]; other site 980514008368 catalytic residue [active] 980514008369 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 980514008370 Multidrug resistance efflux pump [Defense mechanisms]; Region: EmrA; COG1566 980514008371 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 980514008372 HlyD family secretion protein; Region: HlyD_3; pfam13437 980514008373 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 980514008374 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 980514008375 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 980514008376 ABC-2 family transporter protein; Region: ABC2_membrane_3; pfam12698 980514008377 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 980514008378 uncharacterized YdjC-like family proteins from bacteria; Region: YdjC_like_3; cd10807 980514008379 putative active site [active] 980514008380 YdjC motif; other site 980514008381 Mg binding site [ion binding]; other site 980514008382 putative homodimer interface [polypeptide binding]; other site 980514008383 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 980514008384 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 980514008385 Ligand binding site; other site 980514008386 Putative Catalytic site; other site 980514008387 DXD motif; other site 980514008388 GtrA-like protein; Region: GtrA; pfam04138 980514008389 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 980514008390 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 980514008391 DNA gyrase subunit A; Validated; Region: PRK05560 980514008392 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 980514008393 CAP-like domain; other site 980514008394 active site 980514008395 primary dimer interface [polypeptide binding]; other site 980514008396 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 980514008397 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 980514008398 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 980514008399 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 980514008400 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 980514008401 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 980514008402 electron transfer flavoprotein subunit alpha; Provisional; Region: PLN00022 980514008403 The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an...; Region: ETF_alpha; cd01715 980514008404 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 980514008405 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 980514008406 Ligand binding site [chemical binding]; other site 980514008407 Electron transfer flavoprotein domain; Region: ETF; pfam01012 980514008408 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 980514008409 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 980514008410 active site 980514008411 DNA binding site [nucleotide binding] 980514008412 Int/Topo IB signature motif; other site 980514008413 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 980514008414 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 980514008415 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 980514008416 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 980514008417 diaminopimelate decarboxylase; Region: lysA; TIGR01048 980514008418 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 980514008419 active site 980514008420 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 980514008421 substrate binding site [chemical binding]; other site 980514008422 catalytic residues [active] 980514008423 dimer interface [polypeptide binding]; other site 980514008424 D-alanine/D-serine/glycine permease; Provisional; Region: PRK11049 980514008425 DNA repair protein RadA; Provisional; Region: PRK11823 980514008426 Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of...; Region: Sms; cd01121 980514008427 Walker A motif/ATP binding site; other site 980514008428 ATP binding site [chemical binding]; other site 980514008429 Walker B motif; other site 980514008430 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 980514008431 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane; Region: Tim44; smart00978 980514008432 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 980514008433 EF-P lysine aminoacylase GenX; Region: genX; TIGR00462 980514008434 motif 1; other site 980514008435 dimer interface [polypeptide binding]; other site 980514008436 active site 980514008437 motif 2; other site 980514008438 motif 3; other site 980514008439 erythronate-4-phosphate dehydrogenase; Validated; Region: PRK00257 980514008440 D-Erythronate-4-Phosphate Dehydrogenase NAD-binding and catalytic domains; Region: ErythrP_dh; cd12158 980514008441 ligand binding site [chemical binding]; other site 980514008442 NAD binding site [chemical binding]; other site 980514008443 catalytic site [active] 980514008444 homodimer interface [polypeptide binding]; other site 980514008445 Protein of unknown function (DUF1232); Region: DUF1232; cl01318 980514008446 formate dehydrogenase accessory protein; Reviewed; Region: PRK00724 980514008447 oxidoreductase alpha (molybdopterin) subunit; Region: Fdhalpha-like; TIGR01701 980514008448 The MopB_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. These members belong to the molybdopterin_binding (MopB) superfamily of proteins; Region: MopB_ydeP; cd02767 980514008449 putative molybdopterin cofactor binding site [chemical binding]; other site 980514008450 The MopB_CT_ydeP CD includes a group of related uncharacterized bacterial molybdopterin-binding oxidoreductase-like domains with a putative molybdopterin cofactor binding site. This CD is of the conserved molybdopterin_binding C-terminal (MopB_CT) region...; Region: MopB_CT_ydeP; cd02787 980514008451 putative molybdopterin cofactor binding site; other site 980514008452 Glycerate kinase [Carbohydrate transport and metabolism]; Region: COG1929 980514008453 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 980514008454 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 980514008455 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 980514008456 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 980514008457 NAD(P) binding site [chemical binding]; other site 980514008458 active site 980514008459 Nitroreductase-like family 1. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_1; cd02137 980514008460 dimer interface [polypeptide binding]; other site 980514008461 FMN binding site [chemical binding]; other site 980514008462 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 980514008463 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 980514008464 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 980514008465 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 980514008466 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 980514008467 The adenylation (A) domain of siderophore-synthesizing nonribosomal peptide synthetases (NRPS); Region: A_NRPS_SidN3_like; cd05918 980514008468 amino acid adenylation domain; Region: AA-adenyl-dom; TIGR01733 980514008469 acyl-activating enzyme (AAE) consensus motif; other site 980514008470 AMP binding site [chemical binding]; other site 980514008471 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 980514008472 non-ribosomal peptide synthetase terminal domain of unknown function; Region: NRPS_term_dom; TIGR02353 980514008473 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 980514008474 putative trimer interface [polypeptide binding]; other site 980514008475 putative CoA binding site [chemical binding]; other site 980514008476 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 980514008477 putative CoA binding site [chemical binding]; other site 980514008478 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 980514008479 Calcium/calmodulin dependent protein kinase II Association; Region: CaMKII_AD; cl17504 980514008480 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 980514008481 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 980514008482 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 980514008483 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 980514008484 N-acetyl-D-glucosamine binding site [chemical binding]; other site 980514008485 catalytic residue [active] 980514008486 SCP-2 sterol transfer family; Region: SCP2; pfam02036 980514008487 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 980514008488 This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily; Region: Alpha_ANH_like_II; cd01993 980514008489 Ligand Binding Site [chemical binding]; other site 980514008490 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 980514008491 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 980514008492 N-acetyl-D-glucosamine binding site [chemical binding]; other site 980514008493 catalytic residue [active] 980514008494 heat shock protein HtpX; Provisional; Region: PRK05457 980514008495 Domain of unknown function (DUF4112); Region: DUF4112; pfam13430 980514008496 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 980514008497 Protein export membrane protein; Region: SecD_SecF; cl14618 980514008498 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 980514008499 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 980514008500 putative active site [active] 980514008501 catalytic site [active] 980514008502 putative metal binding site [ion binding]; other site 980514008503 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 980514008504 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 980514008505 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 980514008506 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 980514008507 ring oligomerisation interface [polypeptide binding]; other site 980514008508 ATP/Mg binding site [chemical binding]; other site 980514008509 stacking interactions; other site 980514008510 hinge regions; other site 980514008511 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 980514008512 oligomerisation interface [polypeptide binding]; other site 980514008513 mobile loop; other site 980514008514 roof hairpin; other site 980514008515 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 980514008516 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 980514008517 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 980514008518 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 980514008519 Putative flagellar system-associated repeat; Region: SWM_repeat; pfam13753 980514008520 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 980514008521 Bacterial Ig-like domain (group 3); Region: Big_3_4; pfam13754 980514008522 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 980514008523 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 980514008524 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 980514008525 active site 980514008526 metal binding site [ion binding]; metal-binding site 980514008527 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]; Region: LCB5; COG1597 980514008528 Diacylglycerol kinase catalytic domain; Region: DAGK_cat; pfam00781 980514008529 Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis. It catalyzes the reversible decarboxylation and...; Region: PEPCK_GTP; cd00819 980514008530 active site 980514008531 substrate-binding site [chemical binding]; other site 980514008532 metal-binding site [ion binding] 980514008533 GTP binding site [chemical binding]; other site 980514008534 glycerol-3-phosphate dehydrogenase; Reviewed; Region: glpD; PRK12266 980514008535 glycerol kinase; Provisional; Region: glpK; PRK00047 980514008536 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 980514008537 N- and C-terminal domain interface [polypeptide binding]; other site 980514008538 active site 980514008539 MgATP binding site [chemical binding]; other site 980514008540 catalytic site [active] 980514008541 metal binding site [ion binding]; metal-binding site 980514008542 glycerol binding site [chemical binding]; other site 980514008543 homotetramer interface [polypeptide binding]; other site 980514008544 homodimer interface [polypeptide binding]; other site 980514008545 FBP binding site [chemical binding]; other site 980514008546 protein IIAGlc interface [polypeptide binding]; other site 980514008547 alpha-ketoglutarate transporter; Provisional; Region: PRK10406 980514008548 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 980514008549 putative substrate translocation pore; other site 980514008550 Predicted methyltransferase [General function prediction only]; Region: COG3897 980514008551 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 980514008552 S-adenosylmethionine binding site [chemical binding]; other site 980514008553 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14192 980514008554 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 980514008555 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 980514008556 homodimer interface [polypeptide binding]; other site 980514008557 NADP binding site [chemical binding]; other site 980514008558 substrate binding site [chemical binding]; other site 980514008559 PhoD-like phosphatase; Region: PhoD; pfam09423 980514008560 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 980514008561 putative active site [active] 980514008562 putative metal binding site [ion binding]; other site 980514008563 Bacillus subtilis PhoD and related proteins, metallophosphatase domain; Region: MPP_PhoD; cd07389 980514008564 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 980514008565 dihydropteroate synthase; Region: DHPS; TIGR01496 980514008566 substrate binding pocket [chemical binding]; other site 980514008567 dimer interface [polypeptide binding]; other site 980514008568 inhibitor binding site; inhibition site 980514008569 FtsH Extracellular; Region: FtsH_ext; pfam06480 980514008570 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 980514008571 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 980514008572 Walker A motif; other site 980514008573 ATP binding site [chemical binding]; other site 980514008574 Walker B motif; other site 980514008575 arginine finger; other site 980514008576 Peptidase family M41; Region: Peptidase_M41; pfam01434 980514008577 FtsJ-like methyltransferase; Region: FtsJ; cl17430 980514008578 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 980514008579 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 980514008580 Domon-like domain of UDP-N-acetylenolpyruvoylglucosamine reductase; Region: DOMON_murB_like; cd09627 980514008581 putative heme binding site [chemical binding]; other site 980514008582 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 980514008583 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 980514008584 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 980514008585 catalytic site [active] 980514008586 subunit interface [polypeptide binding]; other site 980514008587 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 980514008588 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 980514008589 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 980514008590 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 980514008591 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 980514008592 ATP-grasp domain; Region: ATP-grasp_4; cl17255 980514008593 Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways...; Region: MGS_CPS_II; cd01424 980514008594 IMP binding site; other site 980514008595 dimer interface [polypeptide binding]; other site 980514008596 interdomain contacts; other site 980514008597 partial ornithine binding site; other site 980514008598 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 980514008599 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 980514008600 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 980514008601 Acetyltransferase (isoleucine patch superfamily) [General function prediction only]; Region: WbbJ; COG0110 980514008602 Xenobiotic acyltransferase (XAT): The XAT class of hexapeptide acyltransferases is composed of a large number of microbial enzymes that catalyze the CoA-dependent acetylation of a variety of hydroxyl-bearing acceptors such as chloramphenicol and...; Region: LbH_XAT; cd03349 980514008603 trimer interface [polypeptide binding]; other site 980514008604 active site 980514008605 substrate binding site [chemical binding]; other site 980514008606 CoA binding site [chemical binding]; other site 980514008607 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 980514008608 Ligand Binding Site [chemical binding]; other site 980514008609 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 980514008610 DNA binding site [nucleotide binding] 980514008611 active site 980514008612 Zinc-dependent metalloprotease. This super-family of metalloproteases contains two major branches, the astacin-like proteases and the adamalysin/reprolysin-like proteases. Both branches have wide phylogenetic distribution, and contain sub-families, which...; Region: ZnMc; cl00064 980514008613 active site 980514008614 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 980514008615 putative active site [active] 980514008616 putative metal binding site [ion binding]; other site 980514008617 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 980514008618 type 2 lantibiotic biosynthesis protein LanM; Region: lanti_2_LanM; TIGR03897 980514008619 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 980514008620 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 980514008621 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 980514008622 active site 980514008623 DNA binding site [nucleotide binding] 980514008624 Int/Topo IB signature motif; other site 980514008625 AAA domain; Region: AAA_33; pfam13671 980514008626 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 980514008627 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 980514008628 Predicted metalloprotease [General function prediction only]; Region: COG2321 980514008629 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 980514008630 Protein of unknown function (DUF808); Region: DUF808; pfam05661 980514008631 tryptophanyl-tRNA synthetase II; Reviewed; Region: PRK12282 980514008632 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 980514008633 active site 980514008634 HIGH motif; other site 980514008635 dimer interface [polypeptide binding]; other site 980514008636 KMSKS motif; other site 980514008637 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 980514008638 CoA binding domain; Region: CoA_binding; smart00881 980514008639 CoA-ligase; Region: Ligase_CoA; pfam00549 980514008640 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 980514008641 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 980514008642 CoA-ligase; Region: Ligase_CoA; pfam00549 980514008643 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 980514008644 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 980514008645 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 980514008646 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 980514008647 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 980514008648 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 980514008649 E3 interaction surface; other site 980514008650 lipoyl attachment site [posttranslational modification]; other site 980514008651 e3 binding domain; Region: E3_binding; pfam02817 980514008652 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 980514008653 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 980514008654 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 980514008655 TPP-binding site [chemical binding]; other site 980514008656 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 980514008657 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 980514008658 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 980514008659 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 980514008660 L-aspartate oxidase; Provisional; Region: PRK06175 980514008661 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 980514008662 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase D (SdhD) subunit; SQR catalyzes the oxidation of succinate to fumarate coupled to the reduction of quinone to quinol. E. coli SQR, a member of this subfamily, reduces the...; Region: SQR_TypeC_SdhD; cd03494 980514008663 SdhC subunit interface [polypeptide binding]; other site 980514008664 proximal heme binding site [chemical binding]; other site 980514008665 cardiolipin binding site; other site 980514008666 Iron-sulfur protein interface; other site 980514008667 proximal quinone binding site [chemical binding]; other site 980514008668 Succinate:quinone oxidoreductase (SQR) Type C subfamily, Succinate dehydrogenase C (SdhC) subunit; composed of bacterial SdhC and eukaryotic large cytochrome b binding (CybL) proteins. SQR catalyzes the oxidation of succinate to fumarate coupled to the...; Region: SQR_TypeC_SdhC; cd03499 980514008669 proximal quinone binding site [chemical binding]; other site 980514008670 SdhD (CybS) interface [polypeptide binding]; other site 980514008671 proximal heme binding site [chemical binding]; other site 980514008672 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 980514008673 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 980514008674 dimer interface [polypeptide binding]; other site 980514008675 active site 980514008676 citrylCoA binding site [chemical binding]; other site 980514008677 NADH binding [chemical binding]; other site 980514008678 cationic pore residues; other site 980514008679 oxalacetate/citrate binding site [chemical binding]; other site 980514008680 coenzyme A binding site [chemical binding]; other site 980514008681 catalytic triad [active] 980514008682 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 980514008683 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 980514008684 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 980514008685 active site residue [active] 980514008686 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 980514008687 Helix-turn-helix domain; Region: HTH_38; pfam13936 980514008688 Homeodomain-like domain; Region: HTH_32; pfam13565 980514008689 Integrase core domain; Region: rve; pfam00665 980514008690 Integrase core domain; Region: rve_3; cl15866 980514008691 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 980514008692 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 980514008693 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 980514008694 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 980514008695 RNA polymerase sigma factor RpoD, C-terminal domain; Region: RpoD_Cterm; TIGR02393 980514008696 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 980514008697 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 980514008698 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 980514008699 DNA binding residues [nucleotide binding] 980514008700 Protein of unknown function (DUF493); Region: DUF493; pfam04359 980514008701 lipoate-protein ligase B; Provisional; Region: PRK14342 980514008702 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 980514008703 Iron-containing alcohol dehydrogenases-like; Region: Fe-ADH5; cd08189 980514008704 putative active site [active] 980514008705 metal binding site [ion binding]; metal-binding site 980514008706 Amino acid transporters [Amino acid transport and metabolism]; Region: PotE; COG0531 980514008707 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 980514008708 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 980514008709 Predicted transcriptional regulators [Transcription]; Region: COG1733 980514008710 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 980514008711 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 980514008712 siroheme synthase; Provisional; Region: cysG; PRK10637 980514008713 Putative NAD(P)-binding; Region: NAD_binding_7; pfam13241 980514008714 Sirohaem synthase dimerisation region; Region: CysG_dimeriser; pfam10414 980514008715 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 980514008716 active site 980514008717 SAM binding site [chemical binding]; other site 980514008718 homodimer interface [polypeptide binding]; other site 980514008719 seryl-tRNA synthetase; Provisional; Region: PRK05431 980514008720 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 980514008721 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 980514008722 dimer interface [polypeptide binding]; other site 980514008723 active site 980514008724 motif 1; other site 980514008725 motif 2; other site 980514008726 motif 3; other site 980514008727 Protein of unknown function (DUF3298); Region: DUF3298; pfam11738 980514008728 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 980514008729 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 980514008730 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 980514008731 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 980514008732 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 980514008733 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 980514008734 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 980514008735 substrate binding pocket [chemical binding]; other site 980514008736 chain length determination region; other site 980514008737 substrate-Mg2+ binding site; other site 980514008738 catalytic residues [active] 980514008739 aspartate-rich region 1; other site 980514008740 active site lid residues [active] 980514008741 aspartate-rich region 2; other site 980514008742 Site-specific recombinase; Region: SpecificRecomb; pfam10136 980514008743 PAP2_like_2 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which is specific to bacteria, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_2; cd03392 980514008744 Membrane-associated phospholipid phosphatase [Lipid metabolism]; Region: PgpB; COG0671 980514008745 active site 980514008746 multidrug efflux system transporter AcrA; Provisional; Region: PRK15030 980514008747 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 980514008748 HlyD family secretion protein; Region: HlyD_3; pfam13437 980514008749 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 980514008750 Protein export membrane protein; Region: SecD_SecF; cl14618 980514008751 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 980514008752 Putative heavy-metal-binding; Region: YbjQ_1; cl00426 980514008753 Uncharacterized conserved protein [Function unknown]; Region: COG0393 980514008754 SnoaL-like domain; Region: SnoaL_4; pfam13577 980514008755 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 980514008756 short chain dehydrogenase; Provisional; Region: PRK06181 980514008757 NAD(P) binding site [chemical binding]; other site 980514008758 active site 980514008759 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 980514008760 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 980514008761 HIGH motif; other site 980514008762 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 980514008763 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 980514008764 active site 980514008765 KMSKS motif; other site 980514008766 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 980514008767 tRNA binding surface [nucleotide binding]; other site 980514008768 anticodon binding site; other site 980514008769 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 980514008770 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 980514008771 S-adenosylmethionine binding site [chemical binding]; other site 980514008772 Predicted permeases [General function prediction only]; Region: COG0679 980514008773 Transcriptional regulator [Transcription]; Region: LysR; COG0583 980514008774 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 980514008775 putative DNA binding site [nucleotide binding]; other site 980514008776 putative Zn2+ binding site [ion binding]; other site 980514008777 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cd05466 980514008778 dimerization interface [polypeptide binding]; other site 980514008779 Ammonia permease [Inorganic ion transport and metabolism]; Region: AmtB; COG0004 980514008780 PAP2_like_6 proteins. PAP2 is a super-family of phosphatases and haloperoxidases. This subgroup, which mainly contains bacterial proteins, lacks functional characterization and may act as a membrane-associated lipid phosphatase; Region: PAP2_like_6; cd03396 980514008781 active site 980514008782 sensor protein QseC; Provisional; Region: PRK10337 980514008783 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 980514008784 dimer interface [polypeptide binding]; other site 980514008785 phosphorylation site [posttranslational modification] 980514008786 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 980514008787 ATP binding site [chemical binding]; other site 980514008788 Mg2+ binding site [ion binding]; other site 980514008789 G-X-G motif; other site 980514008790 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 980514008791 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 980514008792 active site 980514008793 phosphorylation site [posttranslational modification] 980514008794 intermolecular recognition site; other site 980514008795 dimerization interface [polypeptide binding]; other site 980514008796 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 980514008797 DNA binding site [nucleotide binding] 980514008798 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 980514008799 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 980514008800 muropeptide transporter; Validated; Region: ampG; cl17669 980514008801 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 980514008802 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: Unknown ABO13168; Region: LPLAT_ABO13168-like; cd07988 980514008803 putative acyl-acceptor binding pocket; other site 980514008804 hypothetical protein; Provisional; Region: PRK10279 980514008805 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 980514008806 nucleophile elbow; other site 980514008807 Membrane protein implicated in regulation of membrane protease activity [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: COG1585 980514008808 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 980514008809 Band_7_stomatin_like: A subgroup of the band 7 domain of flotillin (reggie) like proteins similar to stomatin and podicin (two lipid raft-associated integral membrane proteins). Individual proteins of this band 7 domain family may cluster to form...; Region: Band_7_stomatin_like; cd03403 980514008810 Protein of unknown function (DUF419); Region: DUF419; cl15265 980514008811 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 980514008812 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 980514008813 substrate binding pocket [chemical binding]; other site 980514008814 chain length determination region; other site 980514008815 substrate-Mg2+ binding site; other site 980514008816 catalytic residues [active] 980514008817 aspartate-rich region 1; other site 980514008818 active site lid residues [active] 980514008819 aspartate-rich region 2; other site 980514008820 probable AcnD-accessory protein PrpF; Region: prpF; TIGR02334 980514008821 Gamma-aminobutyrate permease and related permeases [Amino acid transport and metabolism]; Region: AnsP; COG1113 980514008822 chaperone protein HchA; Provisional; Region: PRK04155 980514008823 Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GAT_1; cl00020 980514008824 conserved cys residue [active] 980514008825 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 980514008826 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 980514008827 NAD(P) binding site [chemical binding]; other site 980514008828 AraC-type transcriptional regulator N-terminus; Region: AraC_N; pfam06719 980514008829 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 980514008830 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 980514008831 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 980514008832 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 980514008833 Mrr N-terminal domain; Region: Mrr_N; pfam14338 980514008834 PaaX-like protein C-terminal domain; Region: PaaX_C; pfam08223 980514008835 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 980514008836 putative di-iron ligands [ion binding]; other site 980514008837 This CD includes the dihydrorhizobitoxine fatty acid desaturase (RtxC) characterized in Bradyrhizobium japonicum USDA110, and other related proteins. Dihydrorhizobitoxine desaturase is reported to be involved in the final step of rhizobitoxine...; Region: Rhizobitoxine-FADS-like; cd03510 980514008838 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 980514008839 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 980514008840 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 980514008841 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 980514008842 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 980514008843 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 980514008844 Outer membrane protein transport protein (OMPP1/FadL/TodX); Region: Toluene_X; cl17479 980514008845 phosphoserine phosphatase; Provisional; Region: thrH; PRK13582 980514008846 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 980514008847 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 980514008848 Active Sites [active] 980514008849 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 980514008850 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 980514008851 ribonuclease G; Provisional; Region: PRK11712 980514008852 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 980514008853 homodimer interface [polypeptide binding]; other site 980514008854 oligonucleotide binding site [chemical binding]; other site 980514008855 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 980514008856 active site 980514008857 dimer interface [polypeptide binding]; other site 980514008858 rod shape-determining protein MreC; Provisional; Region: PRK13922 980514008859 rod shape-determining protein MreC; Region: MreC; pfam04085 980514008860 rod shape-determining protein MreB; Provisional; Region: PRK13927 980514008861 MreB and similar proteins; Region: MreB_like; cd10225 980514008862 nucleotide binding site [chemical binding]; other site 980514008863 Mg binding site [ion binding]; other site 980514008864 putative protofilament interaction site [polypeptide binding]; other site 980514008865 RodZ interaction site [polypeptide binding]; other site 980514008866 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 980514008867 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 980514008868 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 980514008869 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 980514008870 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 980514008871 GatB domain; Region: GatB_Yqey; smart00845 980514008872 intracellular protease, PfpI family; Region: PfpI; TIGR01382 980514008873 Type 1 glutamine amidotransferase (GATase1)-like domain found in a subgroup of proteins similar to PfpI from Pyrococcus furiosus; Region: GATase1_PfpI_1; cd03169 980514008874 conserved cys residue [active] 980514008875 Protein of unknown function (DUF1176); Region: DUF1176; pfam06674 980514008876 microcin B17 transporter; Reviewed; Region: PRK11098 980514008877 threonine dehydratase; Provisional; Region: PRK07334 980514008878 Threonine dehydratase: The first step in amino acid degradation is the removal of nitrogen. Although the nitrogen atoms of most amino acids are transferred to alpha-ketoglutarate before removal, the alpha-amino group of threonine can be directly...; Region: Thr-dehyd; cd01562 980514008879 tetramer interface [polypeptide binding]; other site 980514008880 pyridoxal 5'-phosphate binding site [chemical binding]; other site 980514008881 catalytic residue [active] 980514008882 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 980514008883 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 980514008884 Patatin-like phospholipase domain containing protein 6, protein 7, and fungal NTE1; Region: Pat_PNPLA6_PNPLA7_NTE1_like; cd07205 980514008885 active site 980514008886 nucleophile elbow; other site 980514008887 Na+/alanine symporter [Amino acid transport and metabolism]; Region: AlsT; COG1115 980514008888 Sodium:alanine symporter family; Region: Na_Ala_symp; cl00548 980514008889 Nitroreductase family. Members of this family utilize FMN as a cofactor and catalyze reduction of a variety of nitroaromatic compounds, including nitrofurans, nitrobenzens, nitrophenol, nitrobenzoate and quinones by using either NADH or NADPH as a source...; Region: Nitroreductase; cd02136 980514008890 putative FMN binding site [chemical binding]; other site 980514008891 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 980514008892 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 980514008893 putative substrate translocation pore; other site 980514008894 TIGR01666 family membrane protein; Region: YCCS 980514008895 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 980514008896 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 980514008897 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 980514008898 YcxB-like protein; Region: YcxB; pfam14317 980514008899 Uncharacterized iron-regulated membrane protein [Function unknown]; Region: PiuB; COG3182 980514008900 PepSY-associated TM helix; Region: PepSY_TM_1; pfam13172 980514008901 PepSY-associated TM helix; Region: PepSY_TM_2; pfam13703 980514008902 Sulfite reductase, alpha subunit (flavoprotein) [Inorganic ion transport and metabolism]; Region: CysJ; COG0369 980514008903 Flavodoxin; Region: Flavodoxin_1; pfam00258 980514008904 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ...; Region: SiR_like1; cd06200 980514008905 FAD binding pocket [chemical binding]; other site 980514008906 FAD binding motif [chemical binding]; other site 980514008907 catalytic residues [active] 980514008908 NAD binding pocket [chemical binding]; other site 980514008909 phosphate binding motif [ion binding]; other site 980514008910 beta-alpha-beta structure motif; other site 980514008911 Uncharacterized conserved protein [Function unknown]; Region: COG1434 980514008912 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 980514008913 putative active site [active] 980514008914 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 980514008915 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 980514008916 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2832 980514008917 Domain of unknown function (DUF1853); Region: DUF1853; cl01545 980514008918 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 980514008919 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 980514008920 metal binding site [ion binding]; metal-binding site 980514008921 dimer interface [polypeptide binding]; other site 980514008922 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 980514008923 putative binding surface; other site 980514008924 active site 980514008925 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 980514008926 putative binding surface; other site 980514008927 active site 980514008928 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 980514008929 putative binding surface; other site 980514008930 active site 980514008931 Histidine Phosphotransfer domain, involved in signalling through a two part component systems in which an autophosphorylating histidine protein kinase serves as a phosphoryl donor to a response regulator protein; the response regulator protein is...; Region: HPT; cd00088 980514008932 putative binding surface; other site 980514008933 active site 980514008934 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 980514008935 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 980514008936 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 980514008937 ATP binding site [chemical binding]; other site 980514008938 Mg2+ binding site [ion binding]; other site 980514008939 G-X-G motif; other site 980514008940 CheA regulatory domain; CheA is a histidine protein kinase present in bacteria and archea. Activated by the chemotaxis receptor a histidine phosphoryl group from CheA is passed directly to an aspartate in the response regulator CheY. This signalling...; Region: CheA_reg; cd00731 980514008941 Response regulator receiver domain; Region: Response_reg; pfam00072 980514008942 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 980514008943 active site 980514008944 phosphorylation site [posttranslational modification] 980514008945 intermolecular recognition site; other site 980514008946 dimerization interface [polypeptide binding]; other site 980514008947 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 980514008948 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 980514008949 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 980514008950 dimer interface [polypeptide binding]; other site 980514008951 putative CheW interface [polypeptide binding]; other site 980514008952 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 980514008953 Response regulator receiver domain; Region: Response_reg; pfam00072 980514008954 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 980514008955 active site 980514008956 phosphorylation site [posttranslational modification] 980514008957 intermolecular recognition site; other site 980514008958 dimerization interface [polypeptide binding]; other site 980514008959 Response regulator receiver domain; Region: Response_reg; pfam00072 980514008960 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 980514008961 active site 980514008962 phosphorylation site [posttranslational modification] 980514008963 intermolecular recognition site; other site 980514008964 dimerization interface [polypeptide binding]; other site 980514008965 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 980514008966 HlyD family secretion protein; Region: HlyD_3; pfam13437 980514008967 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 980514008968 prolyl-tRNA synthetase; Provisional; Region: PRK09194 980514008969 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_prok; cd00779 980514008970 dimer interface [polypeptide binding]; other site 980514008971 motif 1; other site 980514008972 active site 980514008973 motif 2; other site 980514008974 INS is an amino acid-editing domain inserted (INS) into the bacterial class II prolyl-tRNA synthetase (ProRS) however, this CD is not exclusively bacterial. It is also found at the N-terminus of the eukaryotic/archaea-like ProRS's of yeasts and...; Region: ProRS-INS; cd04334 980514008975 putative deacylase active site [active] 980514008976 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 980514008977 active site 980514008978 motif 3; other site 980514008979 ProRS Prolyl-anticodon binding domain, short version found predominantly in bacteria. ProRS belongs to class II aminoacyl-tRNA synthetases (aaRS). This alignment contains the anticodon binding domain, which is responsible for specificity in tRNA-binding; Region: ProRS_anticodon_short; cd00861 980514008980 anticodon binding site; other site 980514008981 Uncharacterized conserved protein [Function unknown]; Region: COG3422 980514008982 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 980514008983 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 980514008984 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 980514008985 PhnA protein; Region: PhnA; pfam03831 980514008986 Uncharacterized conserved protein [Function unknown]; Region: COG3189 980514008987 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 980514008988 putative hydrophobic ligand binding site [chemical binding]; other site 980514008989 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 980514008990 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 980514008991 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 980514008992 DsbA family, DsbC and DsbG subfamily; V-shaped homodimeric proteins containing a redox active CXXC motif imbedded in a TRX fold. They function as protein disulfide isomerases and chaperones in the bacterial periplasm to correct non-native disulfide bonds...; Region: DsbA_DsbC_DsbG; cd03020 980514008993 dimerization domain [polypeptide binding]; other site 980514008994 dimer interface [polypeptide binding]; other site 980514008995 catalytic residues [active] 980514008996 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 980514008997 Sel1-like repeats; Region: SEL1; smart00671 980514008998 Predicted permeases [General function prediction only]; Region: COG0679 980514008999 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 980514009000 Old yellow enzyme (OYE) YqjM-like FMN binding domain. YqjM is involved in the oxidative stress response of Bacillus subtilis. Like the other OYE members, each monomer of YqjM contains FMN as a non-covalently bound cofactor and uses NADPH as a reducing...; Region: OYE_YqiM_FMN; cd02932 980514009001 active site 980514009002 FMN binding site [chemical binding]; other site 980514009003 substrate binding site [chemical binding]; other site 980514009004 homotetramer interface [polypeptide binding]; other site 980514009005 catalytic residue [active] 980514009006 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 980514009007 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 980514009008 N-terminal plug; other site 980514009009 ligand-binding site [chemical binding]; other site 980514009010 Alkyladenine DNA glycosylase catalyzes the first step in base excision repair; Region: AAG; cd00540 980514009011 active site 980514009012 DNA binding site [nucleotide binding] 980514009013 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 980514009014 N-terminal domain of Escherichia coli Fpg1/MutM and related bacterial DNA glycosylases; Region: EcFpg-like_N; cd08966 980514009015 DNA binding site [nucleotide binding] 980514009016 catalytic residue [active] 980514009017 H2TH interface [polypeptide binding]; other site 980514009018 putative catalytic residues [active] 980514009019 turnover-facilitating residue; other site 980514009020 intercalation triad [nucleotide binding]; other site 980514009021 8OG recognition residue [nucleotide binding]; other site 980514009022 putative reading head residues; other site 980514009023 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 980514009024 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 980514009025 PPIC-type PPIASE domain; Region: Rotamase_2; cl08278 980514009026 GGCT-like domains, also called AIG2-like family. Gamma-glutamyl cyclotransferase (GGCT) catalyzes the formation of pyroglutamic acid (5-oxoproline) from dipeptides containing gamma-glutamyl, and is a dimeric protein. In Homo sapiens, the protein is...; Region: GGCT_like; cd06661 980514009027 putative active site pocket [active] 980514009028 dimerization interface [polypeptide binding]; other site 980514009029 putative catalytic residue [active] 980514009030 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 980514009031 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 980514009032 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 980514009033 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 980514009034 G1 box; other site 980514009035 putative GEF interaction site [polypeptide binding]; other site 980514009036 GTP/Mg2+ binding site [chemical binding]; other site 980514009037 Switch I region; other site 980514009038 G2 box; other site 980514009039 G3 box; other site 980514009040 Switch II region; other site 980514009041 G4 box; other site 980514009042 G5 box; other site 980514009043 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 980514009044 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 980514009045 Xanthine/uracil permeases [Nucleotide transport and metabolism]; Region: UraA; COG2233 980514009046 16S ribosomal RNA m2G1207 methyltransferase; Provisional; Region: rsmC; PRK09489 980514009047 Methyltransferase small domain N-terminal; Region: MTS_N; pfam08468 980514009048 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 980514009049 S-adenosylmethionine binding site [chemical binding]; other site 980514009050 lysine transporter; Provisional; Region: PRK10836 980514009051 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 980514009052 hypothetical protein; Reviewed; Region: PRK09588 980514009053 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; pfam13505 980514009054 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 980514009055 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 980514009056 ligand binding site [chemical binding]; other site 980514009057 Type II transport protein GspH; Region: GspH; pfam12019 980514009058 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 980514009059 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 980514009060 dimer interface [polypeptide binding]; other site 980514009061 active site 980514009062 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 980514009063 Escherichia coli PhnB and similar proteins; the E. coli phnB gene is found next to an operon involved in the cleavage of carbon-phosphorus bonds in unactivated alkylphosphonates; Region: PhnB_like; cd06588 980514009064 dimer interface [polypeptide binding]; other site 980514009065 Membrane transporters of cations and cationic drugs [Inorganic ion transport and metabolism]; Region: EmrE; COG2076 980514009066 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 980514009067 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 980514009068 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 980514009069 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 980514009070 membrane-bound PQQ-dependent dehydrogenase, glucose/quinate/shikimate family; Region: PQQ_membr_DH; TIGR03074 980514009071 Membrane-bound PQQ-dependent glucose dehydrogenase; Region: PQQ_mGDH; cd10280 980514009072 Trp docking motif [polypeptide binding]; other site 980514009073 putative active site [active] 980514009074 Carbohydrate-selective porin, OprB family; Region: OprB; cl17816 980514009075 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 980514009076 CoA-transferase family III; Region: CoA_transf_3; pfam02515 980514009077 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 980514009078 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 980514009079 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 980514009080 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 980514009081 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 980514009082 dimer interface [polypeptide binding]; other site 980514009083 active site 980514009084 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 980514009085 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 980514009086 substrate binding site [chemical binding]; other site 980514009087 oxyanion hole (OAH) forming residues; other site 980514009088 trimer interface [polypeptide binding]; other site 980514009089 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 980514009090 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 980514009091 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: COG4667 980514009092 Hypothetical patatin similar to yjju protein of Escherichia coli; Region: Pat_hypo_Ecoli_yjju_like; cd07208 980514009093 active site 980514009094 nucleophile elbow; other site 980514009095 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; pfam13444 980514009096 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 980514009097 Methyltransferase domain; Region: Methyltransf_31; pfam13847 980514009098 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 980514009099 S-adenosylmethionine binding site [chemical binding]; other site 980514009100 Haemolysin-III related; Region: HlyIII; cl03831 980514009101 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 980514009102 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 980514009103 metabolite-proton symporter; Region: 2A0106; TIGR00883 980514009104 putative substrate translocation pore; other site 980514009105 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 980514009106 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 980514009107 SEC-C motif; Region: SEC-C; pfam02810 980514009108 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 980514009109 Peroxiredoxin (PRX) family, 1-cys PRX subfamily; composed of PRXs containing only one conserved cysteine, which serves as the peroxidatic cysteine. They are homodimeric thiol-specific antioxidant (TSA) proteins that confer a protective role in cells by...; Region: PRX_1cys; cd03016 980514009110 dimer interface [polypeptide binding]; other site 980514009111 decamer (pentamer of dimers) interface [polypeptide binding]; other site 980514009112 catalytic triad [active] 980514009113 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 980514009114 Protein tyrosine phosphatases (PTP) catalyze the dephosphorylation of phosphotyrosine peptides; they regulate phosphotyrosine levels in signal transduction pathways. The depth of the active site cleft renders the enzyme specific for phosphorylated Tyr; Region: PTPc; cl00053 980514009115 active site 980514009116 catalytic residues [active] 980514009117 Sporulation related domain; Region: SPOR; cl10051 980514009118 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 980514009119 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 980514009120 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 980514009121 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 980514009122 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 980514009123 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 980514009124 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 980514009125 substrate binding site [chemical binding]; other site 980514009126 active site 980514009127 catalytic residues [active] 980514009128 heterodimer interface [polypeptide binding]; other site 980514009129 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 980514009130 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 980514009131 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 980514009132 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 980514009133 Protein of unknown function (DUF2804); Region: DUF2804; pfam10974 980514009134 Domain of Unknown Function (DUF1543); Region: DUF1543; pfam07566 980514009135 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 980514009136 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 980514009137 pyridoxal 5'-phosphate binding site [chemical binding]; other site 980514009138 catalytic residue [active] 980514009139 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 980514009140 active site 980514009141 Outer membrane cobalamin receptor protein [Coenzyme metabolism]; Region: BtuB; COG4206 980514009142 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 980514009143 N-terminal plug; other site 980514009144 ligand-binding site [chemical binding]; other site 980514009145 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 980514009146 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 980514009147 Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins; Region: GDPD; cd08556 980514009148 active site 980514009149 catalytic site [active] 980514009150 metal binding site [ion binding]; metal-binding site 980514009151 META domain; Region: META; pfam03724 980514009152 The Delta9 Fatty Acid Desaturase (Delta9-FADS)-like CD includes the delta-9 and delta-11 acyl CoA desaturases found in various eukaryotes including vertebrates, insects, higher plants, and fungi. The delta-9 acyl-lipid desaturases are found in a wide...; Region: Delta9-FADS-like; cd03505 980514009153 Fatty acid desaturase; Region: FA_desaturase; pfam00487 980514009154 Di-iron ligands [ion binding]; other site 980514009155 Uncharacterized conserved protein [Function unknown]; Region: COG0397 980514009156 hypothetical protein; Validated; Region: PRK00029 980514009157 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 980514009158 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 980514009159 active site 980514009160 phosphorylation site [posttranslational modification] 980514009161 intermolecular recognition site; other site 980514009162 dimerization interface [polypeptide binding]; other site 980514009163 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 980514009164 DNA binding site [nucleotide binding] 980514009165 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cd06225 980514009166 dimerization interface [polypeptide binding]; other site 980514009167 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 980514009168 dimer interface [polypeptide binding]; other site 980514009169 phosphorylation site [posttranslational modification] 980514009170 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 980514009171 ATP binding site [chemical binding]; other site 980514009172 Mg2+ binding site [ion binding]; other site 980514009173 G-X-G motif; other site 980514009174 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 980514009175 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 980514009176 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 980514009177 active site 980514009178 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 980514009179 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 980514009180 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 980514009181 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 980514009182 active site 980514009183 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 980514009184 LysR family transcriptional regulator; Provisional; Region: PRK14997 980514009185 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514009186 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA and its related homologs, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA_like; cd08422 980514009187 putative effector binding pocket; other site 980514009188 dimerization interface [polypeptide binding]; other site 980514009189 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 980514009190 GST_N family, Class Beta subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens; Region: GST_N_Beta; cd03057 980514009191 C-terminal domain interface [polypeptide binding]; other site 980514009192 GSH binding site (G-site) [chemical binding]; other site 980514009193 dimer interface [polypeptide binding]; other site 980514009194 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 980514009195 dimer interface [polypeptide binding]; other site 980514009196 substrate binding pocket (H-site) [chemical binding]; other site 980514009197 N-terminal domain interface [polypeptide binding]; other site 980514009198 Predicted membrane protein [Function unknown]; Region: COG3223 980514009199 Domain of unknown function (DUF3315); Region: DUF3315; pfam11776 980514009200 Putative catalytic domain, repeat 1, of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar2_1; cd09129 980514009201 putative active site [active] 980514009202 putative catalytic site [active] 980514009203 Putative catalytic domain, repeat 2, of uncharacterized phospholipase D-like proteins; Region: PLDc_unchar2_2; cd09130 980514009204 PLD-like domain; Region: PLDc_2; pfam13091 980514009205 putative active site [active] 980514009206 putative catalytic site [active] 980514009207 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 980514009208 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 980514009209 N-terminal plug; other site 980514009210 ligand-binding site [chemical binding]; other site 980514009211 Domain of unknown function (DUF4184); Region: DUF4184; pfam13803 980514009212 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 980514009213 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 980514009214 dimer interface [polypeptide binding]; other site 980514009215 anticodon binding site; other site 980514009216 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 980514009217 homodimer interface [polypeptide binding]; other site 980514009218 motif 1; other site 980514009219 active site 980514009220 motif 2; other site 980514009221 GAD domain; Region: GAD; pfam02938 980514009222 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 980514009223 active site 980514009224 motif 3; other site 980514009225 Protein of unknown function (DUF3184); Region: DUF3184; pfam11380 980514009226 Glycosyltransferase family 25 [lipooligosaccharide (LOS) biosynthesis protein] is a family of glycosyltransferases involved in LOS biosynthesis. The members include the beta(1,4) galactosyltransferases: Lgt2 of Moraxella catarrhalis, LgtB and LgtE of...; Region: Glyco_transf_25; cd06532 980514009227 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 980514009228 This family is most closely related to the GT1 family of glycosyltransferases and named after YqgM in Bacillus licheniformis about which little is known. Glycosyltransferases catalyze the transfer of sugar moieties from activated donor molecules to...; Region: GT1_YqgM_like; cd03801 980514009229 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 980514009230 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 980514009231 putative metal binding site; other site 980514009232 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 980514009233 Putative catalytic NodB homology domain of PgaB, IcaB, and similar proteins which consist of a deformed (beta/alpha)8 barrel fold with 5- or 6-strands; Region: CE4_NodB_like_5s_6s; cd10918 980514009234 putative active site [active] 980514009235 putative metal binding site [ion binding]; other site 980514009236 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; cl17736 980514009237 phosphorylation site [posttranslational modification] 980514009238 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 980514009239 Predicted nucleoside-diphosphate-sugar epimerase [Cell envelope biogenesis, outer membrane]; Region: COG3660 980514009240 Mitochondrial fission ELM1; Region: Mito_fiss_Elm1; pfam06258 980514009241 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 980514009242 BCAT_beta_family: Branched-chain aminotransferase catalyses the transamination of the branched-chain amino acids leusine, isoleucine and valine to their respective alpha-keto acids, alpha-ketoisocaproate, alpha-keto-beta-methylvalerate and...; Region: BCAT_beta_family; cd01557 980514009243 homodimer interface [polypeptide binding]; other site 980514009244 substrate-cofactor binding pocket; other site 980514009245 catalytic residue [active] 980514009246 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 980514009247 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 980514009248 metal binding triad; other site 980514009249 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 980514009250 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 980514009251 metal binding triad; other site 980514009252 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 980514009253 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 980514009254 dimer interface [polypeptide binding]; other site 980514009255 phosphorylation site [posttranslational modification] 980514009256 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 980514009257 ATP binding site [chemical binding]; other site 980514009258 Mg2+ binding site [ion binding]; other site 980514009259 G-X-G motif; other site 980514009260 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Provisional; Region: queA; PRK00147 980514009261 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 980514009262 LemA family; Region: LemA; cl00742 980514009263 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 980514009264 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 980514009265 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 980514009266 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 980514009267 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 980514009268 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 980514009269 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 980514009270 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 980514009271 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 980514009272 Protein export membrane protein; Region: SecD_SecF; pfam02355 980514009273 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 980514009274 Flavoprotein; Region: Flavoprotein; pfam02441 980514009275 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 980514009276 hypothetical protein; Reviewed; Region: PRK00024 980514009277 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 980514009278 MPN+ (JAMM) motif; other site 980514009279 Zinc-binding site [ion binding]; other site 980514009280 Bestrophin, RFP-TM, chloride channel; Region: Bestrophin; pfam01062 980514009281 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 980514009282 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 980514009283 active site 980514009284 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 980514009285 Intracellular septation protein A; Region: IspA; pfam04279 980514009286 YciI-like protein; Reviewed; Region: PRK11370 980514009287 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 980514009288 Uncharacterized conserved protein [Function unknown]; Region: COG4121 980514009289 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 980514009290 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 980514009291 active site residue [active] 980514009292 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 980514009293 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 980514009294 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 980514009295 CoenzymeA binding site [chemical binding]; other site 980514009296 subunit interaction site [polypeptide binding]; other site 980514009297 PHB binding site; other site 980514009298 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 980514009299 thioredoxin 2; Provisional; Region: PRK10996 980514009300 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 980514009301 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 980514009302 catalytic residues [active] 980514009303 Hydrolases of the alpha/beta superfamily [General function prediction only]; Region: COG1073 980514009304 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 980514009305 Putative phosphatase (DUF442); Region: DUF442; cl17385 980514009306 dihydrolipoamide dehydrogenase; Validated; Region: PRK06292 980514009307 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 980514009308 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 980514009309 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 980514009310 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 980514009311 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 980514009312 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 980514009313 metal binding site [ion binding]; metal-binding site 980514009314 active site 980514009315 I-site; other site 980514009316 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 980514009317 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 980514009318 ligand binding site [chemical binding]; other site 980514009319 phosphodiesterase YaeI; Provisional; Region: PRK11340 980514009320 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 980514009321 putative active site [active] 980514009322 putative metal binding site [ion binding]; other site 980514009323 Phosphatidylserine/phosphatidylglycerophosphate/car diolipin synthases and related enzymes [Lipid metabolism]; Region: Cls; COG1502 980514009324 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 980514009325 putative active site [active] 980514009326 catalytic site [active] 980514009327 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 980514009328 putative active site [active] 980514009329 catalytic site [active] 980514009330 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 980514009331 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 980514009332 putative acyl-acceptor binding pocket; other site 980514009333 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 980514009334 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 980514009335 HflX GTPase family; Region: HflX; cd01878 980514009336 G1 box; other site 980514009337 GTP/Mg2+ binding site [chemical binding]; other site 980514009338 Switch I region; other site 980514009339 G2 box; other site 980514009340 G3 box; other site 980514009341 Switch II region; other site 980514009342 G4 box; other site 980514009343 G5 box; other site 980514009344 LrgB-like family; Region: LrgB; cl00596 980514009345 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 980514009346 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 980514009347 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 980514009348 active site 980514009349 metal binding site [ion binding]; metal-binding site 980514009350 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 980514009351 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 980514009352 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 980514009353 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 980514009354 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 980514009355 23S rRNA interface [nucleotide binding]; other site 980514009356 L3 interface [polypeptide binding]; other site 980514009357 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 980514009358 stringent starvation protein A; Provisional; Region: sspA; PRK09481 980514009359 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 980514009360 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 980514009361 dimer interface [polypeptide binding]; other site 980514009362 N-terminal domain interface [polypeptide binding]; other site 980514009363 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 980514009364 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 980514009365 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 980514009366 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 980514009367 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 980514009368 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 980514009369 carboxyltransferase (CT) interaction site; other site 980514009370 biotinylation site [posttranslational modification]; other site 980514009371 enoyl-CoA hydratase; Provisional; Region: PRK05995 980514009372 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 980514009373 substrate binding site [chemical binding]; other site 980514009374 oxyanion hole (OAH) forming residues; other site 980514009375 trimer interface [polypeptide binding]; other site 980514009376 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 980514009377 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 980514009378 active site 980514009379 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 980514009380 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 980514009381 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 980514009382 Trans-2-enoyl-CoA reductase (TER) and 2,4-dienoyl-CoA reductase (DECR), atypical (a) SDR; Region: TER_DECR_SDR_a; cd05369 980514009383 NAD(P) binding site [chemical binding]; other site 980514009384 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 980514009385 substrate binding site [chemical binding]; other site 980514009386 homotetramer interface [polypeptide binding]; other site 980514009387 active site 980514009388 homodimer interface [polypeptide binding]; other site 980514009389 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 980514009390 RUN domain; Region: RUN; cl02689 980514009391 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 980514009392 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 980514009393 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 980514009394 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 980514009395 active site 980514009396 Protein of unknown function (DUF4256); Region: DUF4256; pfam14066 980514009397 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 980514009398 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 980514009399 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 980514009400 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 980514009401 Predicted proline hydroxylase [Posttranslational modification, protein turnover, chaperones]; Region: EGL-9; COG3751 980514009402 2OG-Fe(II) oxygenase superfamily; Region: 2OG-FeII_Oxy_3; pfam13640 980514009403 Protein of unknown function (DUF2789); Region: DUF2789; pfam10982 980514009404 malate dehydrogenase; Provisional; Region: PRK05442 980514009405 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 980514009406 NAD(P) binding site [chemical binding]; other site 980514009407 dimer interface [polypeptide binding]; other site 980514009408 malate binding site [chemical binding]; other site 980514009409 Ribonuclease T2 (RNase T2) is a widespread family of secreted RNases found in every organism examined thus far. This family includes RNase Rh, RNase MC1, RNase LE, and self-incompatibility RNases (S-RNases). Plant T2 RNases are expressed during leaf...; Region: RNase_T2_prok; cd01062 980514009410 B1 nucleotide binding pocket [chemical binding]; other site 980514009411 B2 nucleotide binding pocket [chemical binding]; other site 980514009412 CAS motifs; other site 980514009413 active site 980514009414 lytic murein transglycosylase; Provisional; Region: PRK11619 980514009415 Lytic Transglycosylase (LT) and Goose Egg White Lysozyme (GEWL) domain. Members include the soluble and insoluble membrane-bound LTs in bacteria, the LTs in bacteriophage lambda, as well as, the eukaryotic "goose-type" lysozymes (GEWL). LTs...; Region: LT_GEWL; cd00254 980514009416 N-acetyl-D-glucosamine binding site [chemical binding]; other site 980514009417 catalytic residue [active] 980514009418 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 980514009419 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 980514009420 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 980514009421 FeS/SAM binding site; other site 980514009422 TRAM domain; Region: TRAM; cl01282 980514009423 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 980514009424 PhoH-like protein; Region: PhoH; pfam02562 980514009425 metal-binding heat shock protein; Provisional; Region: PRK00016 980514009426 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 980514009427 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 980514009428 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 980514009429 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 980514009430 active site 980514009431 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 980514009432 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 980514009433 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 980514009434 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 980514009435 EamA-like transporter family; Region: EamA; pfam00892 980514009436 Helix-turn-helix domain; Region: HTH_18; pfam12833 980514009437 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 980514009438 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 980514009439 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 980514009440 YcxB-like protein; Region: YcxB; pfam14317 980514009441 Nitroreductase-like family 4. A subfamily of the nitroreductase family containing uncharacterized proteins that are similar to nitroreductase. Nitroreductase catalyzes the reduction of nitroaromatic compounds such as nitrotoluenes, nitrofurans and...; Region: Nitroreductase_4; cd02140 980514009442 dimer interface [polypeptide binding]; other site 980514009443 FMN binding site [chemical binding]; other site 980514009444 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 980514009445 ribonuclease R; Region: RNase_R; TIGR02063 980514009446 RNB domain; Region: RNB; pfam00773 980514009447 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 980514009448 RNA binding site [nucleotide binding]; other site 980514009449 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 980514009450 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 980514009451 active site 980514009452 Zn binding site [ion binding]; other site 980514009453 Probable metal-binding protein (DUF2387); Region: DUF2387; pfam09526 980514009454 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 980514009455 rhomboid family GlyGly-CTERM serine protease; Region: rhom_GG_sort; TIGR03902 980514009456 Flavinator of succinate dehydrogenase; Region: Sdh5; pfam03937 980514009457 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 980514009458 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 980514009459 active site 980514009460 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 980514009461 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 980514009462 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 980514009463 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 980514009464 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 980514009465 alphaNTD homodimer interface [polypeptide binding]; other site 980514009466 alphaNTD - beta interaction site [polypeptide binding]; other site 980514009467 alphaNTD - beta' interaction site [polypeptide binding]; other site 980514009468 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 980514009469 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 980514009470 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 980514009471 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 980514009472 RNA binding surface [nucleotide binding]; other site 980514009473 30S ribosomal protein S11; Validated; Region: PRK05309 980514009474 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 980514009475 30S ribosomal protein S13; Region: bact_S13; TIGR03631 980514009476 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 980514009477 SecY translocase; Region: SecY; pfam00344 980514009478 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 980514009479 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 980514009480 23S rRNA binding site [nucleotide binding]; other site 980514009481 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 980514009482 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 980514009483 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 980514009484 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 980514009485 5S rRNA interface [nucleotide binding]; other site 980514009486 23S rRNA interface [nucleotide binding]; other site 980514009487 L5 interface [polypeptide binding]; other site 980514009488 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 980514009489 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 980514009490 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 980514009491 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 980514009492 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 980514009493 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 980514009494 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 980514009495 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 980514009496 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 980514009497 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 980514009498 RNA binding site [nucleotide binding]; other site 980514009499 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 980514009500 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 980514009501 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 980514009502 23S rRNA interface [nucleotide binding]; other site 980514009503 putative translocon interaction site; other site 980514009504 signal recognition particle (SRP54) interaction site; other site 980514009505 L23 interface [polypeptide binding]; other site 980514009506 trigger factor interaction site; other site 980514009507 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 980514009508 23S rRNA interface [nucleotide binding]; other site 980514009509 5S rRNA interface [nucleotide binding]; other site 980514009510 putative antibiotic binding site [chemical binding]; other site 980514009511 L25 interface [polypeptide binding]; other site 980514009512 L27 interface [polypeptide binding]; other site 980514009513 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 980514009514 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 980514009515 G-X-X-G motif; other site 980514009516 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 980514009517 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 980514009518 putative translocon binding site; other site 980514009519 protein-rRNA interface [nucleotide binding]; other site 980514009520 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 980514009521 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 980514009522 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 980514009523 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 980514009524 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 980514009525 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 980514009526 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 980514009527 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 980514009528 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 980514009529 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 980514009530 catalytic triad [active] 980514009531 cystathionine beta-lyase; Provisional; Region: PRK07050 980514009532 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 980514009533 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 980514009534 catalytic residue [active] 980514009535 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 980514009536 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 980514009537 Walker A motif; other site 980514009538 ATP binding site [chemical binding]; other site 980514009539 Walker B motif; other site 980514009540 Zonular occludens toxin (Zot); Region: Zot; cl17485 980514009541 Globins are heme proteins, which bind and transport oxygen. This family summarizes a diverse set of homologous protein domains, including: (1) tetrameric vertebrate hemoglobins, which are the major protein component of erythrocytes and transport oxygen...; Region: globin; cd01040 980514009542 heme-binding site [chemical binding]; other site 980514009543 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 980514009544 FAD binding pocket [chemical binding]; other site 980514009545 conserved FAD binding motif [chemical binding]; other site 980514009546 phosphate binding motif [ion binding]; other site 980514009547 Transcriptional regulator; Region: Rrf2; cl17282 980514009548 Rrf2 family protein; Region: rrf2_super; TIGR00738 980514009549 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 980514009550 G1 box; other site 980514009551 GTP/Mg2+ binding site [chemical binding]; other site 980514009552 Switch I region; other site 980514009553 G2 box; other site 980514009554 G3 box; other site 980514009555 Switch II region; other site 980514009556 G4 box; other site 980514009557 G5 box; other site 980514009558 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 980514009559 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 980514009560 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 980514009561 Sodium:dicarboxylate symporter family; Region: SDF; pfam00375 980514009562 Acyl-CoA thioesterase [Lipid metabolism]; Region: TesB; COG1946 980514009563 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat2; cd03445 980514009564 active site 980514009565 Thioesterase II (TEII) is thought to regenerate misprimed nonribosomal peptide synthetases (NRPSs) as well as modular polyketide synthases (PKSs) by hydrolyzing acetyl groups bound to the peptidyl carrier protein (PCP) and acyl carrier protein (ACP)...; Region: Thioesterase_II_repeat1; cd03444 980514009566 catalytic triad [active] 980514009567 dimer interface [polypeptide binding]; other site 980514009568 glycerol-3-phosphate O-acyltransferase; Region: plsB; TIGR03703 980514009569 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: GPAT-like; Region: LPLAT_DHAPAT-like; cd07993 980514009570 putative acyl-acceptor binding pocket; other site 980514009571 lysine-arginine-ornithine-binding periplasmic protein; Region: 3A0103s03R; TIGR01096 980514009572 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 980514009573 NADH(P)-binding; Region: NAD_binding_10; pfam13460 980514009574 NAD(P) binding site [chemical binding]; other site 980514009575 active site 980514009576 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 980514009577 RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a...; Region: RecG_wedge_OBF; cd04488 980514009578 ssDNA binding site; other site 980514009579 generic binding surface II; other site 980514009580 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 980514009581 ATP binding site [chemical binding]; other site 980514009582 putative Mg++ binding site [ion binding]; other site 980514009583 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 980514009584 nucleotide binding region [chemical binding]; other site 980514009585 ATP-binding site [chemical binding]; other site 980514009586 comF family protein; Region: comF; TIGR00201 980514009587 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 980514009588 active site 980514009589 Members of the Nudix hydrolase superfamily catalyze the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+, for their activity and contain a highly...; Region: Nudix_Hydrolase_31; cd04690 980514009590 nudix motif; other site 980514009591 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 980514009592 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 980514009593 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 980514009594 Cl binding site [ion binding]; other site 980514009595 oligomer interface [polypeptide binding]; other site 980514009596 Sulphate Transporter and Anti-Sigma factor antagonist) domain of anti-anti-sigma factors, key regulators of anti-sigma factors by phosphorylation; Region: STAS_anti-anti-sigma_factors; cd07043 980514009597 anti sigma factor interaction site; other site 980514009598 regulatory phosphorylation site [posttranslational modification]; other site 980514009599 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 980514009600 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 980514009601 mce related protein; Region: MCE; pfam02470 980514009602 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 980514009603 Permease; Region: Permease; cl00510 980514009604 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 980514009605 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 980514009606 Walker A/P-loop; other site 980514009607 ATP binding site [chemical binding]; other site 980514009608 Q-loop/lid; other site 980514009609 ABC transporter signature motif; other site 980514009610 Walker B; other site 980514009611 D-loop; other site 980514009612 H-loop/switch region; other site 980514009613 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 980514009614 DEAD-like helicases superfamily; Region: DEXDc; smart00487 980514009615 ATP binding site [chemical binding]; other site 980514009616 Mg++ binding site [ion binding]; other site 980514009617 motif III; other site 980514009618 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 980514009619 nucleotide binding region [chemical binding]; other site 980514009620 ATP-binding site [chemical binding]; other site 980514009621 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 980514009622 IMPase, inositol monophosphatase and related domains. A family of Mg++ dependent phosphatases, inhibited by lithium, many of which may act on inositol monophosphate substrate. They dephosphorylate inositol phosphate to generate inositol, which may be...; Region: IMPase; cd01639 980514009623 active site 980514009624 dimerization interface [polypeptide binding]; other site 980514009625 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 980514009626 Thiamine pyrophosphate (TPP) family, DXS subfamily, TPP-binding module; 1-Deoxy-D-xylulose-5-phosphate synthase (DXS) is a regulatory enzyme of the mevalonate-independent pathway involved in terpenoid biosynthesis. Terpeniods are plant natural products...; Region: TPP_DXS; cd02007 980514009627 TPP-binding site; other site 980514009628 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 980514009629 PYR/PP interface [polypeptide binding]; other site 980514009630 dimer interface [polypeptide binding]; other site 980514009631 TPP binding site [chemical binding]; other site 980514009632 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 980514009633 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 980514009634 dimerization interface [polypeptide binding]; other site 980514009635 active site 980514009636 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 980514009637 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 980514009638 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 980514009639 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 980514009640 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 980514009641 shikimate binding site; other site 980514009642 NAD(P) binding site [chemical binding]; other site 980514009643 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 980514009644 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 980514009645 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 980514009646 active site 980514009647 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 980514009648 hypothetical protein; Provisional; Region: PRK11615 980514009649 PspC domain; Region: PspC; pfam04024 980514009650 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 980514009651 HPP family; Region: HPP; pfam04982 980514009652 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cl15354 980514009653 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with the HPP motif domain. These proteins are integral membrane proteins with four transmembrane spanning helices. The function of these proteins is...; Region: CBS_pair_HPP_assoc; cd04600 980514009654 probable DNA metabolism protein; Region: SAM_7_link_chp; TIGR03915 980514009655 putative DNA modification/repair radical SAM protein; Region: rSAM_link_UDG; TIGR03916 980514009656 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 980514009657 FeS/SAM binding site; other site 980514009658 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 980514009659 Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. It is responsible for the...; Region: GlyRS_alpha_core; cd00733 980514009660 dimer interface [polypeptide binding]; other site 980514009661 motif 1; other site 980514009662 active site 980514009663 motif 2; other site 980514009664 motif 3; other site 980514009665 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 980514009666 YCII-related domain; Region: YCII; cl00999 980514009667 EamA-like transporter family; Region: EamA; pfam00892 980514009668 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 980514009669 EamA-like transporter family; Region: EamA; pfam00892 980514009670 Transcriptional regulator [Transcription]; Region: LysR; COG0583 980514009671 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514009672 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 980514009673 dimerization interface [polypeptide binding]; other site 980514009674 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 980514009675 active site 980514009676 catalytic residues [active] 980514009677 Peptidase M14 Succinylglutamate desuccinylase (ASTE) subfamily; Region: M14_ASTE; cd03855 980514009678 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 980514009679 putative active site [active] 980514009680 Zn binding site [ion binding]; other site 980514009681 succinylarginine dihydrolase; Provisional; Region: PRK13281 980514009682 succinylglutamic semialdehyde dehydrogenase; Reviewed; Region: astD; PRK09457 980514009683 N-succinylglutamate 5-semialdehyde dehydrogenase, AstD-like; Region: ALDH_SGSD_AstD; cd07095 980514009684 NAD(P) binding site [chemical binding]; other site 980514009685 catalytic residues [active] 980514009686 Arginine/ornithine N-succinyltransferase beta subunit [Amino acid transport and metabolism]; Region: AstA; COG3138 980514009687 Arginine N-succinyltransferase beta subunit; Region: AstA; cl11440 980514009688 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 980514009689 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 980514009690 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 980514009691 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 980514009692 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 980514009693 NAD(P) binding site [chemical binding]; other site 980514009694 S-methylmethionine transporter; Provisional; Region: PRK11387 980514009695 Methyltransferase domain; Region: Methyltransf_23; pfam13489 980514009696 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 980514009697 S-adenosylmethionine binding site [chemical binding]; other site 980514009698 Endonuclease related to archaeal Holliday junction resolvase; Region: Endonuc_Holl; cl01958 980514009699 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 980514009700 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 980514009701 P-loop; other site 980514009702 Magnesium ion binding site [ion binding]; other site 980514009703 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 980514009704 Domain of unknown function DUF20; Region: UPF0118; pfam01594 980514009705 Cu/Zn superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodC; COG2032 980514009706 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 980514009707 E-class dimer interface [polypeptide binding]; other site 980514009708 P-class dimer interface [polypeptide binding]; other site 980514009709 active site 980514009710 Cu2+ binding site [ion binding]; other site 980514009711 Zn2+ binding site [ion binding]; other site 980514009712 FUSC-like inner membrane protein yccS; Region: FUSC-like; pfam12805 980514009713 Fusaric acid resistance protein-like; Region: FUSC_2; pfam13515 980514009714 multidrug efflux system translocase MdfA; Provisional; Region: PRK15402 980514009715 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 980514009716 putative substrate translocation pore; other site 980514009717 Putative NADPH-quinone reductase (modulator of drug activity B) [General function prediction only]; Region: MdaB; COG2249 980514009718 Uncharacterized conserved protein [Function unknown]; Region: COG1359 980514009719 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 980514009720 FAD binding domain; Region: FAD_binding_4; pfam01565 980514009721 D-3-phosphoglycerate dehydrogenase; Provisional; Region: PRK11790 980514009722 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_3; cd12176 980514009723 ligand binding site [chemical binding]; other site 980514009724 NAD binding site [chemical binding]; other site 980514009725 tetramer interface [polypeptide binding]; other site 980514009726 catalytic site [active] 980514009727 C-terminal ACT (regulatory) domain of D-3-Phosphoglycerate Dehydrogenase (3PGDH) found in fungi and bacteria; Region: ACT_3PGDH; cd04901 980514009728 L-serine binding site [chemical binding]; other site 980514009729 ACT domain interface; other site 980514009730 threonine and homoserine efflux system; Provisional; Region: PRK10532 980514009731 EamA-like transporter family; Region: EamA; pfam00892 980514009732 Threonine/homoserine efflux transporter [Amino acid transport and metabolism]; Region: rhtA; COG5006 980514009733 Hemerythrin-like domain; Region: Hr-like; cd12108 980514009734 hypothetical protein; Provisional; Region: PRK10621 980514009735 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 980514009736 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK05033 980514009737 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 980514009738 RNA binding site [nucleotide binding]; other site 980514009739 active site 980514009740 Pseudouridine synthase II TruB, C-terminal; Region: TruB-C_2; pfam09157 980514009741 lipase chaperone; Provisional; Region: PRK01294 980514009742 Proteobacterial lipase chaperone protein; Region: Lipase_chap; pfam03280 980514009743 Predicted acetyltransferases and hydrolases with the alpha/beta hydrolase fold [General function prediction only]; Region: LipA; COG1075 980514009744 Putative serine esterase (DUF676); Region: DUF676; pfam05057 980514009745 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 980514009746 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 980514009747 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 980514009748 RimM N-terminal domain; Region: RimM; pfam01782 980514009749 PRC-barrel domain; Region: PRC; pfam05239 980514009750 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 980514009751 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 980514009752 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 980514009753 von Willebrand factor type A domain; Region: VWA_2; pfam13519 980514009754 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 980514009755 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 980514009756 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 980514009757 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 980514009758 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 980514009759 Guanosine monophosphate kinase (GMPK, EC 2.7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine...; Region: GMPK; cd00071 980514009760 catalytic site [active] 980514009761 G-X2-G-X-G-K; other site 980514009762 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 980514009763 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 980514009764 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 980514009765 Zn2+ binding site [ion binding]; other site 980514009766 Mg2+ binding site [ion binding]; other site 980514009767 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 980514009768 synthetase active site [active] 980514009769 NTP binding site [chemical binding]; other site 980514009770 metal binding site [ion binding]; metal-binding site 980514009771 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 980514009772 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 980514009773 ACT domain; Region: ACT_4; pfam13291 980514009774 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 980514009775 homotrimer interaction site [polypeptide binding]; other site 980514009776 putative active site [active] 980514009777 Bacterioferritin-associated ferredoxin [Inorganic ion transport and metabolism]; Region: Bfd; COG2906 980514009778 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 980514009779 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 980514009780 heme binding site [chemical binding]; other site 980514009781 ferroxidase pore; other site 980514009782 ferroxidase diiron center [ion binding]; other site 980514009783 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 980514009784 O-Antigen ligase; Region: Wzy_C; pfam04932 980514009785 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 980514009786 O-antigen ligase like membrane protein; Region: O-antigen_lig; pfam13425 980514009787 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 980514009788 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 980514009789 Pilin (bacterial filament); Region: Pilin; pfam00114 980514009790 Repair protein; Region: Repair_PSII; pfam04536 980514009791 Repair protein; Region: Repair_PSII; pfam04536 980514009792 LemA family; Region: LemA; pfam04011 980514009793 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG3687 980514009794 Predicted metal-dependent hydrolase; Region: Metal_hydrol; pfam10118 980514009795 glutamate synthase small subunit family protein, proteobacterial; Region: gltD_gamma_fam; TIGR01318 980514009796 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 980514009797 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 980514009798 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 980514009799 Glutamine amidotransferases class-II (Gn-AT), glutamate synthase (GltS)-type. GltS is a homodimer that synthesizes L-glutamate from 2-oxoglutarate and L-glutamine, an important step in ammonia assimilation in bacteria, cyanobacteria and plants. The...; Region: GltS; cd00713 980514009800 active site 980514009801 dimer interface [polypeptide binding]; other site 980514009802 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 980514009803 Glutamate synthase (GltS) FMN-binding domain. GltS is a complex iron-sulfur flavoprotein that catalyzes the reductive synthesis of L-glutamate from 2-oxoglutarate and L-glutamine via intramolecular channelling of ammonia, a reaction in the plant, yeast...; Region: GltS_FMN; cd02808 980514009804 active site 980514009805 FMN binding site [chemical binding]; other site 980514009806 substrate binding site [chemical binding]; other site 980514009807 3Fe-4S cluster binding site [ion binding]; other site 980514009808 gltb_C. This domain is found at the C-terminus of the large subunit (gltB) of glutamate synthase (GltS). GltS encodes a complex iron-sulfur flavoprotein that catalyzes the synthesis of L-glutamate from L-glutamine and 2-oxoglutarate. It requires the...; Region: gltB_C; cd00982 980514009809 domain interface; other site 980514009810 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 980514009811 active site 980514009812 dimer interface [polypeptide binding]; other site 980514009813 metal binding site [ion binding]; metal-binding site 980514009814 shikimate kinase; Reviewed; Region: aroK; PRK00131 980514009815 Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants. Chorismic acid is a important intermediate in the synthesis...; Region: SK; cd00464 980514009816 ADP binding site [chemical binding]; other site 980514009817 magnesium binding site [ion binding]; other site 980514009818 putative shikimate binding site; other site 980514009819 AMIN domain; Region: AMIN; pfam11741 980514009820 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 980514009821 Secretin and TonB N terminus short domain; Region: STN; smart00965 980514009822 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 980514009823 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 980514009824 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 980514009825 Pilus assembly protein, PilP; Region: PilP; pfam04351 980514009826 Pilus assembly protein, PilO; Region: PilO; pfam04350 980514009827 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 980514009828 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 980514009829 Competence protein A; Region: Competence_A; pfam11104 980514009830 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 980514009831 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 980514009832 Transglycosylase; Region: Transgly; pfam00912 980514009833 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 980514009834 23S rRNA methyltransferase A; Provisional; Region: rrmA; PRK11088 980514009835 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 980514009836 S-adenosylmethionine binding site [chemical binding]; other site 980514009837 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 980514009838 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 980514009839 Mg++ binding site [ion binding]; other site 980514009840 putative catalytic motif [active] 980514009841 putative substrate binding site [chemical binding]; other site 980514009842 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 980514009843 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 980514009844 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 980514009845 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 980514009846 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 980514009847 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 980514009848 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 980514009849 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 980514009850 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 980514009851 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 980514009852 Cell division protein FtsL; Region: FtsL; pfam04999 980514009853 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 980514009854 MraW methylase family; Region: Methyltransf_5; cl17771 980514009855 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 980514009856 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 980514009857 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 980514009858 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 980514009859 active site 980514009860 HIGH motif; other site 980514009861 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 980514009862 active site 980514009863 KMSKS motif; other site 980514009864 S-methylmethionine transporter; Provisional; Region: PRK11387 980514009865 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 980514009866 heavy metal efflux pump, CzcA family; Region: 2A0601; TIGR00914 980514009867 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 980514009868 Membrane Fusion Protein cluster 2 (function with RND porters); Region: 8a0102; TIGR00999 980514009869 HlyD family secretion protein; Region: HlyD_3; pfam13437 980514009870 Outer membrane efflux protein; Region: OEP; pfam02321 980514009871 Outer membrane efflux protein; Region: OEP; pfam02321 980514009872 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 980514009873 hypothetical protein; Provisional; Region: PRK10215 980514009874 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 980514009875 Sel1-like repeats; Region: SEL1; smart00671 980514009876 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 980514009877 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 980514009878 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 980514009879 ABC transporter; Region: ABC_tran_2; pfam12848 980514009880 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 980514009881 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK06084 980514009882 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 980514009883 homodimer interface [polypeptide binding]; other site 980514009884 substrate-cofactor binding pocket; other site 980514009885 pyridoxal 5'-phosphate binding site [chemical binding]; other site 980514009886 catalytic residue [active] 980514009887 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 980514009888 classical (c) SDRs; Region: SDR_c; cd05233 980514009889 NAD(P) binding site [chemical binding]; other site 980514009890 active site 980514009891 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 980514009892 Sulfate transporter family; Region: Sulfate_transp; pfam00916 980514009893 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeC; cd03378 980514009894 active site clefts [active] 980514009895 zinc binding site [ion binding]; other site 980514009896 dimer interface [polypeptide binding]; other site 980514009897 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 980514009898 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 980514009899 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 980514009900 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 980514009901 RNA binding site [nucleotide binding]; other site 980514009902 osmolarity response regulator; Provisional; Region: ompR; PRK09468 980514009903 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 980514009904 active site 980514009905 phosphorylation site [posttranslational modification] 980514009906 intermolecular recognition site; other site 980514009907 dimerization interface [polypeptide binding]; other site 980514009908 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 980514009909 DNA binding site [nucleotide binding] 980514009910 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 980514009911 HAMP domain; Region: HAMP; pfam00672 980514009912 dimerization interface [polypeptide binding]; other site 980514009913 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 980514009914 dimer interface [polypeptide binding]; other site 980514009915 phosphorylation site [posttranslational modification] 980514009916 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 980514009917 ATP binding site [chemical binding]; other site 980514009918 Mg2+ binding site [ion binding]; other site 980514009919 G-X-G motif; other site 980514009920 Acetyl-CoA hydrolase/transferase N-terminal domain; Region: AcetylCoA_hydro; pfam02550 980514009921 succinate CoA transferase; Region: YgfH_subfam; TIGR03458 980514009922 Acetyl-CoA hydrolase/transferase C-terminal domain; Region: AcetylCoA_hyd_C; pfam13336 980514009923 putative acetyltransferase; Provisional; Region: PRK03624 980514009924 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 980514009925 Coenzyme A binding pocket [chemical binding]; other site 980514009926 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 980514009927 Coenzyme A binding pocket [chemical binding]; other site 980514009928 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 980514009929 putative active site pocket [active] 980514009930 4-fold oligomerization interface [polypeptide binding]; other site 980514009931 metal binding residues [ion binding]; metal-binding site 980514009932 3-fold/trimer interface [polypeptide binding]; other site 980514009933 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13141 980514009934 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 980514009935 putative active site [active] 980514009936 oxyanion strand; other site 980514009937 catalytic triad [active] 980514009938 Protein of unknown function (DUF805); Region: DUF805; pfam05656 980514009939 DEDDy 3'-5' exonuclease domain of WRN and similar proteins; Region: WRN_exo; cd06141 980514009940 catalytic site [active] 980514009941 putative active site [active] 980514009942 putative substrate binding site [chemical binding]; other site 980514009943 HisA. Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1...; Region: HisA; cd04732 980514009944 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 980514009945 catalytic residues [active] 980514009946 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 980514009947 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 980514009948 non-specific DNA binding site [nucleotide binding]; other site 980514009949 salt bridge; other site 980514009950 sequence-specific DNA binding site [nucleotide binding]; other site 980514009951 EamA-like transporter family; Region: EamA; pfam00892 980514009952 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 980514009953 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 980514009954 Predicted membrane protein [Function unknown]; Region: COG3671 980514009955 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 980514009956 DNA-binding site [nucleotide binding]; DNA binding site 980514009957 RNA-binding motif; other site 980514009958 Protein of unknown function (DUF1294); Region: DUF1294; pfam06961 980514009959 Homoserine Kinase, type II. Homoserine kinase is part of a larger superfamily that includes the catalytic domains of other kinases, such as the typical serine/threonine/tyrosine protein kinases (PKs), RIO kinases, actin-fragmin kinase (AFK), and...; Region: HomoserineK_II; cd05153 980514009960 Phosphotransferase enzyme family; Region: APH; pfam01636 980514009961 putative active site [active] 980514009962 putative substrate binding site [chemical binding]; other site 980514009963 ATP binding site [chemical binding]; other site 980514009964 The cyclase subunit of imidazoleglycerol phosphate synthase (HisF). Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)...; Region: HisF; cd04731 980514009965 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 980514009966 substrate binding site [chemical binding]; other site 980514009967 glutamase interaction surface [polypeptide binding]; other site 980514009968 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 980514009969 Helix-turn-helix domain; Region: HTH_18; pfam12833 980514009970 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 980514009971 Major intrinsic protein (MIP) superfamily. Members of the MIP superfamily function as membrane channels that selectively transport water, small neutral molecules, and ions out of and between cells. The channel proteins share a common fold: the N-terminal...; Region: MIP; cd00333 980514009972 amphipathic channel; other site 980514009973 Asn-Pro-Ala signature motifs; other site 980514009974 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 980514009975 DNA/RNA non-specific endonuclease; prokaryotic and eukaryotic double- and single-stranded DNA and RNA endonucleases also present in phosphodiesterases. They exists as monomers and homodimers; Region: NUC; cd00091 980514009976 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 980514009977 active site 980514009978 substrate binding site [chemical binding]; other site 980514009979 Mg2+ binding site [ion binding]; other site 980514009980 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 980514009981 potassium uptake protein; Region: kup; TIGR00794 980514009982 Flavodoxin-like fold; Region: Flavodoxin_2; pfam02525 980514009983 Predicted transcriptional regulators [Transcription]; Region: COG1733 980514009984 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 980514009985 FOG: TPR repeat, SEL1 subfamily [General function prediction only]; Region: COG0790 980514009986 Sel1-like repeats; Region: SEL1; smart00671 980514009987 Sel1 repeat; Region: Sel1; cl02723 980514009988 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 980514009989 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 980514009990 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 980514009991 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 980514009992 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 980514009993 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 980514009994 active site 980514009995 catalytic tetrad [active] 980514009996 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 980514009997 EamA-like transporter family; Region: EamA; pfam00892 980514009998 DNA-binding transcriptional regulator HcaR; Provisional; Region: PRK09906 980514009999 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514010000 The C-terminal substrate binding domain of LysR-type transcrptional regulator BudR, which is responsible for activation of the expression of the butanediol operon genes; contains the type 2 periplasmic binding fold; Region: PBP2_BudR; cd08451 980514010001 putative dimerization interface [polypeptide binding]; other site 980514010002 putative substrate binding pocket [chemical binding]; other site 980514010003 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 980514010004 Major Facilitator Superfamily; Region: MFS_1; pfam07690 980514010005 putative substrate translocation pore; other site 980514010006 Major Facilitator Superfamily; Region: MFS_1; pfam07690 980514010007 Uncharacterized conserved protein [Function unknown]; Region: COG3791 980514010008 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 980514010009 S-adenosylmethionine binding site [chemical binding]; other site 980514010010 Predicted NAD/FAD-binding protein [General function prediction only]; Region: COG2907 980514010011 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 980514010012 Pirin-related protein [General function prediction only]; Region: COG1741 980514010013 Pirin; Region: Pirin; pfam02678 980514010014 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 980514010015 Isochorismatase family; Region: Isochorismatase; pfam00857 980514010016 YcaC related amidohydrolases; E.coli YcaC is an homooctameric hydrolase with unknown specificity. Despite its weak sequence similarity, it is structurally related to other amidohydrolases and shares conserved active site residues with them; Region: YcaC_related; cd01012 980514010017 catalytic triad [active] 980514010018 dimer interface [polypeptide binding]; other site 980514010019 conserved cis-peptide bond; other site 980514010020 LysR family transcriptional regulator; Provisional; Region: PRK14997 980514010021 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514010022 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 980514010023 dimerization interface [polypeptide binding]; other site 980514010024 succinic semialdehyde dehydrogenase; Region: PLN02278 980514010025 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 980514010026 tetramerization interface [polypeptide binding]; other site 980514010027 NAD(P) binding site [chemical binding]; other site 980514010028 catalytic residues [active] 980514010029 4-aminobutyrate aminotransferase; Provisional; Region: PRK06777 980514010030 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 980514010031 inhibitor-cofactor binding pocket; inhibition site 980514010032 pyridoxal 5'-phosphate binding site [chemical binding]; other site 980514010033 catalytic residue [active] 980514010034 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 980514010035 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 980514010036 DNA-binding site [nucleotide binding]; DNA binding site 980514010037 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 980514010038 pyridoxal 5'-phosphate binding site [chemical binding]; other site 980514010039 homodimer interface [polypeptide binding]; other site 980514010040 catalytic residue [active] 980514010041 gamma-aminobutyrate permease; Region: GABAperm; TIGR01773 980514010042 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 980514010043 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 980514010044 non-specific DNA binding site [nucleotide binding]; other site 980514010045 salt bridge; other site 980514010046 sequence-specific DNA binding site [nucleotide binding]; other site 980514010047 Cupin domain; Region: Cupin_2; pfam07883 980514010048 AzlC protein; Region: AzlC; cl00570 980514010049 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 980514010050 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 980514010051 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 980514010052 dimer interface [polypeptide binding]; other site 980514010053 ssDNA binding site [nucleotide binding]; other site 980514010054 tetramer (dimer of dimers) interface [polypeptide binding]; other site 980514010055 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 980514010056 Major Facilitator Superfamily; Region: MFS_1; pfam07690 980514010057 putative substrate translocation pore; other site 980514010058 hypothetical protein; Provisional; Region: PRK14013 980514010059 Putative transcription activator [Transcription]; Region: TenA; COG0819 980514010060 GlpM protein; Region: GlpM; pfam06942 980514010061 Protein of unknown function (DUF1304); Region: DUF1304; pfam06993 980514010062 2-enoyl thioester reductase (ETR) like proteins, child 2; Region: ETR_like_2; cd08292 980514010063 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 980514010064 putative NAD(P) binding site [chemical binding]; other site 980514010065 putative dimer interface [polypeptide binding]; other site 980514010066 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 980514010067 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 980514010068 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 980514010069 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 980514010070 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 980514010071 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 980514010072 AAA domain; Region: AAA_14; pfam13173 980514010073 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 980514010074 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 980514010075 metal binding site [ion binding]; metal-binding site 980514010076 active site 980514010077 I-site; other site 980514010078 BCCT family transporter; Region: BCCT; pfam02028 980514010079 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 980514010080 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 980514010081 Na binding site [ion binding]; other site 980514010082 Protein of unknown function, DUF485; Region: DUF485; pfam04341 980514010083 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 980514010084 Na binding site [ion binding]; other site 980514010085 PAS fold; Region: PAS_7; pfam12860 980514010086 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cl02459 980514010087 putative active site [active] 980514010088 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 980514010089 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 980514010090 dimer interface [polypeptide binding]; other site 980514010091 phosphorylation site [posttranslational modification] 980514010092 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 980514010093 ATP binding site [chemical binding]; other site 980514010094 Mg2+ binding site [ion binding]; other site 980514010095 G-X-G motif; other site 980514010096 Response regulator receiver domain; Region: Response_reg; pfam00072 980514010097 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 980514010098 active site 980514010099 phosphorylation site [posttranslational modification] 980514010100 intermolecular recognition site; other site 980514010101 dimerization interface [polypeptide binding]; other site 980514010102 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 980514010103 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 980514010104 active site 980514010105 phosphorylation site [posttranslational modification] 980514010106 intermolecular recognition site; other site 980514010107 dimerization interface [polypeptide binding]; other site 980514010108 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 980514010109 DNA binding residues [nucleotide binding] 980514010110 dimerization interface [polypeptide binding]; other site 980514010111 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 980514010112 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 980514010113 dimethyl sulfone monooxygenase SfnG; Region: LLM_DMSO2_sfnG; TIGR04021 980514010114 Alkanesulfonate monoxygenase is the monoxygenase of a two-component system that catalyzes the conversion of alkanesulfonates to the corresponding aldehyde and sulfite. Alkanesulfonate monoxygenase (SsuD) has an absolute requirement for reduced flavin...; Region: Alkanesulfonate_monoxygenase; cd01094 980514010115 active site 980514010116 dimer interface [polypeptide binding]; other site 980514010117 non-prolyl cis peptide bond; other site 980514010118 insertion regions; other site 980514010119 helix_turn_helix ASNC type; Region: HTH_ASNC; smart00344 980514010120 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 980514010121 dimerization interface [polypeptide binding]; other site 980514010122 putative DNA binding site [nucleotide binding]; other site 980514010123 putative Zn2+ binding site [ion binding]; other site 980514010124 AsnC family; Region: AsnC_trans_reg; pfam01037 980514010125 Isochorismatase family; Region: Isochorismatase; pfam00857 980514010126 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 980514010127 catalytic triad [active] 980514010128 conserved cis-peptide bond; other site 980514010129 acetyl-CoA synthetase; Provisional; Region: PRK00174 980514010130 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 980514010131 active site 980514010132 CoA binding site [chemical binding]; other site 980514010133 acyl-activating enzyme (AAE) consensus motif; other site 980514010134 AMP binding site [chemical binding]; other site 980514010135 acetate binding site [chemical binding]; other site 980514010136 Protein of unknown function (DUF805); Region: DUF805; pfam05656 980514010137 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 980514010138 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 980514010139 Mechanosensitive ion channel; Region: MS_channel; pfam00924 980514010140 RNA methyltransferase, RsmE family; Region: TIGR00046 980514010141 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 980514010142 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 980514010143 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 980514010144 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 980514010145 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 980514010146 Old yellow enzyme (OYE)-like FMN binding domain. OYE was the first flavin-dependent enzyme identified, however its true physiological role remains elusive to this day. Each monomer of OYE contains FMN as a non-covalently bound cofactor, uses NADPH as a...; Region: OYE_like_FMN; cd02933 980514010147 FMN binding site [chemical binding]; other site 980514010148 active site 980514010149 substrate binding site [chemical binding]; other site 980514010150 catalytic residue [active] 980514010151 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 980514010152 putative DNA binding site [nucleotide binding]; other site 980514010153 dimerization interface [polypeptide binding]; other site 980514010154 putative Zn2+ binding site [ion binding]; other site 980514010155 peptide chain release factor 2; Provisional; Region: PRK08787 980514010156 This domain is found in peptide chain release factors; Region: PCRF; smart00937 980514010157 RF-1 domain; Region: RF-1; pfam00472 980514010158 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 980514010159 DHH family; Region: DHH; pfam01368 980514010160 DHHA1 domain; Region: DHHA1; pfam02272 980514010161 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 980514010162 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 980514010163 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 980514010164 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 980514010165 GlmM is a bacterial phosphoglucosamine mutase (PNGM) that belongs to the alpha-D-phosphohexomutase superfamily. It is required for the interconversion of glucosamine-6-phosphate and glucosamine-1-phosphate in the biosynthetic pathway of...; Region: GlmM; cd05802 980514010166 active site 980514010167 substrate binding site [chemical binding]; other site 980514010168 metal binding site [ion binding]; metal-binding site 980514010169 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 980514010170 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 980514010171 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 980514010172 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 980514010173 active site 980514010174 Predicted Fe-S-cluster oxidoreductase [General function prediction only]; Region: COG0727 980514010175 Uncharacterized flavoproteins [Energy production and conversion]; Region: FpaA; COG0426 980514010176 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 980514010177 ferrichrome outer membrane transporter; Provisional; Region: PRK10044 980514010178 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 980514010179 N-terminal plug; other site 980514010180 ligand-binding site [chemical binding]; other site 980514010181 Predicted membrane protein [Function unknown]; Region: COG2119 980514010182 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 980514010183 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 980514010184 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 980514010185 pyruvate dehydrogenase dihydrolipoyltransacetylase; Validated; Region: aceF; PRK11854 980514010186 E3 interaction surface; other site 980514010187 lipoyl attachment site [posttranslational modification]; other site 980514010188 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 980514010189 E3 interaction surface; other site 980514010190 lipoyl attachment site [posttranslational modification]; other site 980514010191 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 980514010192 E3 interaction surface; other site 980514010193 lipoyl attachment site [posttranslational modification]; other site 980514010194 e3 binding domain; Region: E3_binding; pfam02817 980514010195 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 980514010196 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 980514010197 Thiamine pyrophosphate (TPP) family, E1 of E. coli PDC-like subfamily, TPP-binding module; composed of proteins similar to the E1 component of the Escherichia coli pyruvate dehydrogenase multienzyme complex (PDC). PDC catalyzes the oxidative...; Region: TPP_E1_EcPDC_like; cd02017 980514010198 dimer interface [polypeptide binding]; other site 980514010199 TPP-binding site [chemical binding]; other site 980514010200 Pyrimidine (PYR) binding domain of thiamine pyrophosphate (TPP)-dependent enzymes; Region: TPP_enzyme_PYR; cl11410 980514010201 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 980514010202 Peptidase family M23; Region: Peptidase_M23; pfam01551 980514010203 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 980514010204 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 980514010205 cell division protein FtsZ; Validated; Region: PRK09330 980514010206 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 980514010207 nucleotide binding site [chemical binding]; other site 980514010208 SulA interaction site; other site 980514010209 Cell division ATPase FtsA [Cell division and chromosome partitioning]; Region: ftsA; COG0849 980514010210 Cell division protein FtsA; Region: FtsA; smart00842 980514010211 Cell division protein FtsA; Region: FtsA; pfam14450 980514010212 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 980514010213 Cell division protein FtsQ; Region: FtsQ; pfam03799 980514010214 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 980514010215 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 980514010216 ATP-grasp domain; Region: ATP-grasp_4; cl17255 980514010217 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 980514010218 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 980514010219 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 980514010220 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 980514010221 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 980514010222 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 980514010223 active site 980514010224 homodimer interface [polypeptide binding]; other site 980514010225 glutathione synthetase; Provisional; Region: PRK05246 980514010226 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 980514010227 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 980514010228 Domain of unknown function (DUF1737); Region: DUF1737; pfam08410 980514010229 TonB-dependent siderophore receptor; Region: TonB-siderophor; TIGR01783 980514010230 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 980514010231 N-terminal plug; other site 980514010232 ligand-binding site [chemical binding]; other site 980514010233 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 980514010234 active site 980514010235 Neisseria meningitides Nape-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: Nape_like_AP-endo; cd10281 980514010236 putative active site [active] 980514010237 putative catalytic site [active] 980514010238 putative DNA binding site [nucleotide binding]; other site 980514010239 putative phosphate binding site [ion binding]; other site 980514010240 metal binding site A [ion binding]; metal-binding site 980514010241 putative AP binding site [nucleotide binding]; other site 980514010242 putative metal binding site B [ion binding]; other site 980514010243 Arsenate Reductase (ArsC) family, Yffb subfamily; Yffb is an uncharacterized bacterial protein encoded by the yffb gene, related to the thioredoxin-fold arsenic reductases, ArsC. The structure of Yffb and the conservation of the catalytic cysteine...; Region: ArsC_Yffb; cd03035 980514010244 ArsC family; Region: ArsC; pfam03960 980514010245 putative catalytic residues [active] 980514010246 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 980514010247 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 980514010248 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 980514010249 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 980514010250 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 980514010251 metal binding site [ion binding]; metal-binding site 980514010252 active site 980514010253 I-site; other site 980514010254 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 980514010255 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 980514010256 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 980514010257 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 980514010258 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 980514010259 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 980514010260 Ankyrin repeats (many copies); Region: Ank_5; pfam13857 980514010261 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; cl00250 980514010262 30S subunit binding site; other site 980514010263 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 980514010264 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 980514010265 active site 980514010266 catalytic site [active] 980514010267 tetramer interface [polypeptide binding]; other site 980514010268 putative OHCU decarboxylase; Provisional; Region: PRK13798 980514010269 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 980514010270 active site 980514010271 homotetramer interface [polypeptide binding]; other site 980514010272 xanthine permease; Region: pbuX; TIGR03173 980514010273 Nucleoside-specific channel-forming protein, Tsx; Region: Channel_Tsx; cl04114 980514010274 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 980514010275 FAD binding domain; Region: FAD_binding_3; pfam01494 980514010276 allantoicase; Provisional; Region: PRK13257 980514010277 Allantoicase repeat; Region: Allantoicase; pfam03561 980514010278 Allantoicase repeat; Region: Allantoicase; pfam03561 980514010279 ureidoglycolate hydrolase; Provisional; Region: PRK03606 980514010280 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 980514010281 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 980514010282 classical (c) SDRs; Region: SDR_c; cd05233 980514010283 NAD(P) binding site [chemical binding]; other site 980514010284 active site 980514010285 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 980514010286 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 980514010287 ATP binding site [chemical binding]; other site 980514010288 Mg2+ binding site [ion binding]; other site 980514010289 G-X-G motif; other site 980514010290 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 980514010291 anchoring element; other site 980514010292 dimer interface [polypeptide binding]; other site 980514010293 ATP binding site [chemical binding]; other site 980514010294 Topoisomerase-primase domain. This is a nucleotidyl transferase/hydrolase domain found in type IA, type IIA and type IIB topoisomerases, bacterial DnaG-type primases, small primase-like proteins from bacteria and archaea, OLD family nucleases from...; Region: TOPRIM; cl00718 980514010295 active site 980514010296 metal binding site [ion binding]; metal-binding site 980514010297 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 980514010298 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 980514010299 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 980514010300 PGAP1-like protein; Region: PGAP1; pfam07819 980514010301 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 980514010302 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 980514010303 Peptidase family M23; Region: Peptidase_M23; pfam01551 980514010304 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 980514010305 Uncharacterized protein conserved in bacteria [Function unknown]; Region: VgrG; COG3501 980514010306 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 980514010307 Phage-related baseplate assembly protein; Region: Phage_base_V; pfam04717 980514010308 Putative type VI secretion system Rhs element Vgr; Region: T6SS_Vgr; pfam13296 980514010309 Uncharacterized protein conserved in bacteria (DUF2345); Region: DUF2345; pfam10106 980514010310 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 980514010311 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 980514010312 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 980514010313 Protein of unknown function (DUF445); Region: DUF445; pfam04286 980514010314 methionine aminotransferase; Validated; Region: PRK09082 980514010315 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 980514010316 pyridoxal 5'-phosphate binding site [chemical binding]; other site 980514010317 homodimer interface [polypeptide binding]; other site 980514010318 catalytic residue [active] 980514010319 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 980514010320 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Bacillus subtilis yoeA; Region: MATE_yoeA_like; cd13138 980514010321 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 980514010322 short chain dehydrogenase; Provisional; Region: PRK07832 980514010323 NAD(P) binding site [chemical binding]; other site 980514010324 active site 980514010325 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 980514010326 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 980514010327 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 980514010328 active site 980514010329 phosphorylation site [posttranslational modification] 980514010330 intermolecular recognition site; other site 980514010331 dimerization interface [polypeptide binding]; other site 980514010332 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 980514010333 DNA binding site [nucleotide binding] 980514010334 Domain of unknown function (DUF3329); Region: DUF3329; pfam11808 980514010335 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 980514010336 PAS domain; PAS motifs appear in archaea, eubacteria and eukarya. Probably the most surprising identification of a PAS domain was that in EAG-like K+-channels. PAS domains have been found to bind ligands, and to act as sensors for light and oxygen in...; Region: PAS; cd00130 980514010337 putative active site [active] 980514010338 heme pocket [chemical binding]; other site 980514010339 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 980514010340 dimer interface [polypeptide binding]; other site 980514010341 phosphorylation site [posttranslational modification] 980514010342 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 980514010343 ATP binding site [chemical binding]; other site 980514010344 Mg2+ binding site [ion binding]; other site 980514010345 G-X-G motif; other site 980514010346 Secretory lipase; Region: LIP; pfam03583 980514010347 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 980514010348 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 980514010349 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 980514010350 Predicted acetamidase/formamidase [Energy production and conversion]; Region: COG2421 980514010351 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 980514010352 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 980514010353 Rhodanese Homology Domain (RHOD); an alpha beta fold domain found duplicated in the rhodanese protein. The cysteine containing enzymatically active version of the domain is also found in the Cdc25 class of protein phosphatases and a variety of proteins...; Region: RHOD; cl00125 980514010354 active site residue [active] 980514010355 Thiosulfate sulfurtransferase (TST), C-terminal, catalytic domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the second repeat. Only the second repeat contains the catalytically active Cys residue; Region: TST_Repeat_2; cd01449 980514010356 active site residue [active] 980514010357 nicotinate phosphoribosyltransferase; Provisional; Region: PRK05321 980514010358 Nicotinate phosphoribosyltransferase (NAPRTase) family; Region: NAPRTase; pfam04095 980514010359 active site 980514010360 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 980514010361 putative active site [active] 980514010362 dimerization interface [polypeptide binding]; other site 980514010363 putative tRNAtyr binding site [nucleotide binding]; other site 980514010364 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 980514010365 ACT domains found N-terminal of phosphoserine phosphatase (PSP, SerB); Region: ACT_PSP_2; cd04871 980514010366 phosphoserine phosphatase SerB; Region: serB; TIGR00338 980514010367 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 980514010368 motif II; other site 980514010369 Domain of unknown function (DUF4175); Region: DUF4175; pfam13779 980514010370 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 980514010371 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 980514010372 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 980514010373 dimerization interface [polypeptide binding]; other site 980514010374 active site 980514010375 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 980514010376 homopentamer interface [polypeptide binding]; other site 980514010377 active site 980514010378 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 980514010379 thiamine monophosphate kinase; Provisional; Region: PRK05731 980514010380 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 980514010381 ATP binding site [chemical binding]; other site 980514010382 dimerization interface [polypeptide binding]; other site 980514010383 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 980514010384 tetramer interfaces [polypeptide binding]; other site 980514010385 binuclear metal-binding site [ion binding]; other site 980514010386 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 980514010387 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 980514010388 Substrate binding site; other site 980514010389 Mg++ binding site; other site 980514010390 N-acetyl-glucosamine-1-phosphate uridyltransferase (GlmU), C-terminal left-handed beta-helix (LbH) acetyltransferase domain: GlmU is also known as UDP-N-acetylglucosamine pyrophosphorylase. It is a bifunctional bacterial enzyme that catalyzes two...; Region: LbH_GlmU_C; cd03353 980514010391 active site 980514010392 substrate binding site [chemical binding]; other site 980514010393 CoA binding site [chemical binding]; other site 980514010394 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 980514010395 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 980514010396 glutaminase active site [active] 980514010397 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 980514010398 dimer interface [polypeptide binding]; other site 980514010399 active site 980514010400 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 980514010401 dimer interface [polypeptide binding]; other site 980514010402 active site 980514010403 glutamate racemase; Provisional; Region: PRK00865 980514010404 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 980514010405 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 980514010406 motif II; other site 980514010407 Bacterial protein of unknown function (DUF885); Region: DUF885; pfam05960 980514010408 agmatinase; Region: agmatinase; TIGR01230 980514010409 Formimidoylglutamase or HutE; Region: Formimidoylglutamase; cd09988 980514010410 putative active site [active] 980514010411 putative metal binding site [ion binding]; other site 980514010412 imidazolonepropionase; Validated; Region: PRK09356 980514010413 Imidazolonepropionase/imidazolone-5-propionate hydrolase (Imidazolone-5PH) catalyzes the third step in the histidine degradation pathway, the hydrolysis of (S)-3-(5-oxo-4,5-dihydro-3H-imidazol-4-yl)propanoate to N-formimidoyl-L-glutamate. In bacteria; Region: Imidazolone-5PH; cd01296 980514010414 active site 980514010415 putative proline-specific permease; Provisional; Region: proY; PRK10580 980514010416 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 980514010417 active sites [active] 980514010418 tetramer interface [polypeptide binding]; other site 980514010419 urocanate hydratase; Provisional; Region: PRK05414 980514010420 HutD; Region: HutD; pfam05962 980514010421 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 980514010422 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 980514010423 DNA-binding site [nucleotide binding]; DNA binding site 980514010424 UTRA domain; Region: UTRA; pfam07702 980514010425 Acyltransferase family; Region: Acyl_transf_3; pfam01757 980514010426 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 980514010427 CobW/HypB/UreG, nucleotide-binding domain; Region: cobW; pfam02492 980514010428 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; smart00833 980514010429 Peptidase M15; Region: Peptidase_M15_3; cl01194 980514010430 aromatic amino acid transporter; Provisional; Region: PRK10238 980514010431 fumarylacetoacetase; Region: PLN02856 980514010432 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 980514010433 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 980514010434 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 980514010435 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 980514010436 dimer interface [polypeptide binding]; other site 980514010437 N-terminal domain interface [polypeptide binding]; other site 980514010438 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 980514010439 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 980514010440 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 980514010441 Zn binding site [ion binding]; other site 980514010442 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 980514010443 Transcriptional regulator [Transcription]; Region: IclR; COG1414 980514010444 Bacterial transcriptional regulator; Region: IclR; pfam01614 980514010445 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 980514010446 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 980514010447 dimer interface [polypeptide binding]; other site 980514010448 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 980514010449 active site 980514010450 Fe binding site [ion binding]; other site 980514010451 Uncharacterized conserved protein [Function unknown]; Region: COG1683 980514010452 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 980514010453 putative efflux protein, MATE family; Region: matE; TIGR00797 980514010454 cation binding site [ion binding]; other site 980514010455 Predicted Na+-dependent transporter [General function prediction only]; Region: COG0385 980514010456 Sodium Bile acid symporter family; Region: SBF; pfam01758 980514010457 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 980514010458 Isochorismatase family; Region: Isochorismatase; pfam00857 980514010459 catalytic triad [active] 980514010460 metal binding site [ion binding]; metal-binding site 980514010461 conserved cis-peptide bond; other site 980514010462 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 980514010463 dihydrodipicolinate synthase; Region: dapA; TIGR00674 980514010464 dimer interface [polypeptide binding]; other site 980514010465 active site 980514010466 catalytic residue [active] 980514010467 phosphoribosylaminoimidazole-succinocarboxamide synthase; Reviewed; Region: PRK09362 980514010468 bacterial and archaeal 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_PurC; cd01415 980514010469 ATP binding site [chemical binding]; other site 980514010470 active site 980514010471 substrate binding site [chemical binding]; other site 980514010472 Formate/nitrite transporter; Region: Form_Nir_trans; pfam01226 980514010473 recombination factor protein RarA; Reviewed; Region: PRK13342 980514010474 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 980514010475 Walker A motif; other site 980514010476 ATP binding site [chemical binding]; other site 980514010477 Walker B motif; other site 980514010478 arginine finger; other site 980514010479 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 980514010480 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 980514010481 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 980514010482 hypothetical protein; Provisional; Region: PRK05170 980514010483 Small integral membrane protein [Function unknown]; Region: COG5487; cl17674 980514010484 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 980514010485 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 980514010486 Diadenosine tetraphosphate (Ap4A) hydrolase and other HIT family hydrolases [Nucleotide transport and metabolism / Carbohydrate transport and metabolism / General function prediction only]; Region: Hit; COG0537 980514010487 nucleotide binding site/active site [active] 980514010488 HIT family signature motif; other site 980514010489 catalytic residue [active] 980514010490 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 980514010491 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 980514010492 minor groove reading motif; other site 980514010493 helix-hairpin-helix signature motif; other site 980514010494 substrate binding pocket [chemical binding]; other site 980514010495 active site 980514010496 iron-sulpphur binding domain in DNA-(apurinic or apyrimidinic site) lyase (subfamily of ENDO3); Region: FES; smart00525 980514010497 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 980514010498 DNA binding and oxoG recognition site [nucleotide binding] 980514010499 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 980514010500 Peptidase family M23; Region: Peptidase_M23; pfam01551 980514010501 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 980514010502 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 980514010503 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD1; cd05283 980514010504 putative NAD(P) binding site [chemical binding]; other site 980514010505 putative substrate binding site [chemical binding]; other site 980514010506 catalytic Zn binding site [ion binding]; other site 980514010507 structural Zn binding site [ion binding]; other site 980514010508 dimer interface [polypeptide binding]; other site 980514010509 Transcriptional regulators containing a DNA-binding HTH domain and an aminotransferase domain (MocR family) and their eukaryotic orthologs [Transcription / Amino acid transport and metabolism]; Region: ARO8; COG1167 980514010510 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 980514010511 DNA-binding site [nucleotide binding]; DNA binding site 980514010512 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 980514010513 pyridoxal 5'-phosphate binding site [chemical binding]; other site 980514010514 homodimer interface [polypeptide binding]; other site 980514010515 catalytic residue [active] 980514010516 Transcriptional regulator [Transcription]; Region: LysR; COG0583 980514010517 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514010518 The C-terminal substrate binding domain of LysR-type transcriptional regulator CrgA, contains the type 2 periplasmic binding domain; Region: PBP2_CrgA; cd08478 980514010519 putative effector binding pocket; other site 980514010520 dimerization interface [polypeptide binding]; other site 980514010521 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 980514010522 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 980514010523 active site 980514010524 catalytic tetrad [active] 980514010525 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 980514010526 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 980514010527 putative substrate translocation pore; other site 980514010528 Uncharacterized subgroup of the steroidogenic acute regulatory protein (StAR)-related lipid transfer (START) domain family; Region: START_1; cd08876 980514010529 putative lipid binding site [chemical binding]; other site 980514010530 dihydrodipicolinate reductase; Provisional; Region: PRK00048 980514010531 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 980514010532 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 980514010533 chaperone protein DnaJ; Provisional; Region: PRK10767 980514010534 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 980514010535 HSP70 interaction site [polypeptide binding]; other site 980514010536 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 980514010537 substrate binding site [polypeptide binding]; other site 980514010538 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 980514010539 Zn binding sites [ion binding]; other site 980514010540 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 980514010541 dimer interface [polypeptide binding]; other site 980514010542 Inorganic H+ pyrophosphatase; Region: H_PPase; pfam03030 980514010543 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 980514010544 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 980514010545 HlyD family secretion protein; Region: HlyD_3; pfam13437 980514010546 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 980514010547 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 980514010548 AefR-like transcriptional repressor, C-terminal region; Region: TetR_C_7; pfam14246 980514010549 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 980514010550 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 980514010551 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 980514010552 Transcriptional regulator [Transcription]; Region: LysR; COG0583 980514010553 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 980514010554 The substrate binding domain of LysR-type transcriptional regulators (LTTRs), a member of the type 2 periplasmic binding fold protein superfamily; Region: PBP2_LTTR_substrate; cl11398 980514010555 dimerization interface [polypeptide binding]; other site 980514010556 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 980514010557 dihydroxy-acid dehydratase; Provisional; Region: PRK12448 980514010558 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 980514010559 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 980514010560 putative active site [active] 980514010561 substrate binding site [chemical binding]; other site 980514010562 putative cosubstrate binding site; other site 980514010563 catalytic site [active] 980514010564 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 980514010565 substrate binding site [chemical binding]; other site 980514010566 16S rRNA methyltransferase B; Provisional; Region: PRK10901 980514010567 NusB family; Region: NusB; pfam01029 980514010568 putative RNA binding site [nucleotide binding]; other site 980514010569 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 980514010570 S-adenosylmethionine binding site [chemical binding]; other site 980514010571 uncharacterized bacterial and archaeal solute carrier 6 subfamily; solute-binding domain; Region: SLC6sbd_u1; cd10334 980514010572 Na2 binding site [ion binding]; other site 980514010573 putative substrate binding site 1 [chemical binding]; other site 980514010574 Na binding site 1 [ion binding]; other site 980514010575 putative substrate binding site 2 [chemical binding]; other site 980514010576 outer membrane protein; Region: OMP_w_GlyGly; TIGR04219 980514010577 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 980514010578 GST_N family, unknown subfamily 4; composed of uncharacterized bacterial proteins with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of...; Region: GST_N_4; cd03056 980514010579 putative C-terminal domain interface [polypeptide binding]; other site 980514010580 putative GSH binding site (G-site) [chemical binding]; other site 980514010581 putative dimer interface [polypeptide binding]; other site 980514010582 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 980514010583 dimer interface [polypeptide binding]; other site 980514010584 N-terminal domain interface [polypeptide binding]; other site 980514010585 substrate binding pocket (H-site) [chemical binding]; other site 980514010586 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 980514010587 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 980514010588 active site 980514010589 HIGH motif; other site 980514010590 dimer interface [polypeptide binding]; other site 980514010591 KMSKS motif; other site 980514010592 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585