-- dump date 20140619_234741 -- class Genbank::misc_feature -- table misc_feature_note -- id note 296591000001 chromosomal replication initiation protein; Reviewed; Region: dnaA; PRK00149 296591000002 DnaA N-terminal domain; Region: DnaA_N; pfam11638 296591000003 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 296591000004 Walker A motif; other site 296591000005 ATP binding site [chemical binding]; other site 296591000006 Walker B motif; other site 296591000007 arginine finger; other site 296591000008 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 296591000009 DnaA box-binding interface [nucleotide binding]; other site 296591000010 DNA polymerase III subunit beta; Validated; Region: PRK05643 296591000011 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 296591000012 putative DNA binding surface [nucleotide binding]; other site 296591000013 dimer interface [polypeptide binding]; other site 296591000014 beta-clamp/clamp loader binding surface; other site 296591000015 beta-clamp/translesion DNA polymerase binding surface; other site 296591000016 DNA gyrase subunit B; Provisional; Region: gyrB; PRK14939 296591000017 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 296591000018 ATP binding site [chemical binding]; other site 296591000019 Mg2+ binding site [ion binding]; other site 296591000020 G-X-G motif; other site 296591000021 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 296591000022 anchoring element; other site 296591000023 dimer interface [polypeptide binding]; other site 296591000024 ATP binding site [chemical binding]; other site 296591000025 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 296591000026 active site 296591000027 putative metal-binding site [ion binding]; other site 296591000028 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 296591000029 Uncharacterized conserved protein (DUF2075); Region: DUF2075; pfam09848 296591000030 Uncharacterized conserved protein [Function unknown]; Region: COG3410 296591000031 NnrU protein; Region: NnrU; pfam07298 296591000032 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 296591000033 active site 296591000034 catalytic site [active] 296591000035 substrate binding site [chemical binding]; other site 296591000036 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 296591000037 Walker A motif; other site 296591000038 ATP binding site [chemical binding]; other site 296591000039 Walker B motif; other site 296591000040 arginine finger; other site 296591000041 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 296591000042 prevent-host-death family protein; Region: phd_fam; TIGR01552 296591000043 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 296591000044 oligomeric interface; other site 296591000045 putative active site [active] 296591000046 homodimer interface [polypeptide binding]; other site 296591000047 Fic family protein [Function unknown]; Region: COG3177 296591000048 Fic/DOC family; Region: Fic; pfam02661 296591000049 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 296591000050 ABC1 family; Region: ABC1; cl17513 296591000051 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 296591000052 cell division topological specificity factor MinE; Provisional; Region: PRK13989 296591000053 Septum formation inhibitor-activating ATPase [Cell division and chromosome partitioning]; Region: MinD; COG2894 296591000054 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 296591000055 Switch I; other site 296591000056 Switch II; other site 296591000057 septum formation inhibitor; Reviewed; Region: PRK01973 296591000058 Septum formation inhibitor MinC, N-terminal domain; Region: MinC_N; pfam05209 296591000059 Septum formation inhibitor MinC, C-terminal domain; Region: MinC_C; pfam03775 296591000060 Bacillus subtilis YkuE and related proteins, C-terminal metallophosphatase domain; Region: MPP_YkuE_C; cd07385 296591000061 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 296591000062 putative active site [active] 296591000063 putative metal binding site [ion binding]; other site 296591000064 Predicted integral membrane protein [Function unknown]; Region: COG0392 296591000065 cardiolipin synthase 2; Provisional; Region: PRK11263 296591000066 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 296591000067 putative active site [active] 296591000068 catalytic site [active] 296591000069 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 296591000070 putative active site [active] 296591000071 catalytic site [active] 296591000072 Metal-dependent hydrolase [General function prediction only]; Region: ElsH; COG3568 296591000073 putative catalytic site [active] 296591000074 putative metal binding site [ion binding]; other site 296591000075 putative phosphate binding site [ion binding]; other site 296591000076 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 296591000077 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 296591000078 LTXXQ motif family protein; Region: LTXXQ; pfam07813 296591000079 recombination associated protein; Reviewed; Region: rdgC; PRK00321 296591000080 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 296591000081 Ribulose bisphosphate carboxylase like proteins from nonphototrophic bacteria; Region: RLP_NonPhot; cd08207 296591000082 2,3-diketo-5-methylthiopentyl-1-phosphate enolase; Reviewed; Region: mtnW; PRK09549 296591000083 dimer interface [polypeptide binding]; other site 296591000084 active site 296591000085 catalytic residue [active] 296591000086 metal binding site [ion binding]; metal-binding site 296591000087 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 296591000088 dimer interface [polypeptide binding]; other site 296591000089 substrate binding site [chemical binding]; other site 296591000090 metal binding site [ion binding]; metal-binding site 296591000091 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 296591000092 DctM-like transporters; Region: DctM; pfam06808 296591000093 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 296591000094 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 296591000095 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 296591000096 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 296591000097 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 296591000098 DNA binding site [nucleotide binding] 296591000099 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 296591000100 putative ligand binding site [chemical binding]; other site 296591000101 thiamine biosynthesis protein ThiC; Provisional; Region: PRK09284 296591000102 ThiC-associated domain; Region: ThiC-associated; pfam13667 296591000103 Thiamine biosynthesis protein ThiC [Coenzyme metabolism]; Region: ThiC; COG0422 296591000104 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 296591000105 glycine oxidase ThiO; Region: thiamin_ThiO; TIGR02352 296591000106 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 296591000107 ThiS interaction site; other site 296591000108 putative active site [active] 296591000109 tetramer interface [polypeptide binding]; other site 296591000110 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 296591000111 thiamine phosphate binding site [chemical binding]; other site 296591000112 active site 296591000113 pyrophosphate binding site [ion binding]; other site 296591000114 Hemerythrin-like domain; Region: Hr-like; cd12108 296591000115 Fe binding site [ion binding]; other site 296591000116 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 296591000117 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 296591000118 metal binding site [ion binding]; metal-binding site 296591000119 putative dimer interface [polypeptide binding]; other site 296591000120 Predicted hydrolase (HAD superfamily) [General function prediction only]; Region: COG1011 296591000121 Haloacid dehalogenase superfamily, subfamily IA, variant 2 with 3rd motif like haloacid dehalogenase; Region: HAD-SF-IA-v2; TIGR01493 296591000122 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 296591000123 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 296591000124 Protein of unknown function (DUF861); Region: Cupin_3; cl17594 296591000125 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 296591000126 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 296591000127 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 296591000128 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 296591000129 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 296591000130 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 296591000131 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 296591000132 putative DNA binding site [nucleotide binding]; other site 296591000133 putative Zn2+ binding site [ion binding]; other site 296591000134 AsnC family; Region: AsnC_trans_reg; pfam01037 296591000135 hypothetical protein; Provisional; Region: PRK05965 296591000136 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 296591000137 inhibitor-cofactor binding pocket; inhibition site 296591000138 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591000139 catalytic residue [active] 296591000140 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 296591000141 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 296591000142 putative ligand binding site [chemical binding]; other site 296591000143 NAD binding site [chemical binding]; other site 296591000144 dimerization interface [polypeptide binding]; other site 296591000145 catalytic site [active] 296591000146 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 296591000147 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 296591000148 Coenzyme A binding pocket [chemical binding]; other site 296591000149 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 296591000150 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 296591000151 NAD(P) binding site [chemical binding]; other site 296591000152 catalytic residues [active] 296591000153 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 296591000154 Haloacid dehalogenase superfamily, subfamily IA, variant 2 with 3rd motif like haloacid dehalogenase; Region: HAD-SF-IA-v2; TIGR01493 296591000155 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 296591000156 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 296591000157 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 296591000158 The substrate-binding component of an uncharacterized ABC-type nickel/dipeptide/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like_17; cd08503 296591000159 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 296591000160 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 296591000161 dimer interface [polypeptide binding]; other site 296591000162 conserved gate region; other site 296591000163 putative PBP binding loops; other site 296591000164 ABC-ATPase subunit interface; other site 296591000165 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 296591000166 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 296591000167 dimer interface [polypeptide binding]; other site 296591000168 conserved gate region; other site 296591000169 ABC-ATPase subunit interface; other site 296591000170 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 296591000171 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 296591000172 Walker A/P-loop; other site 296591000173 ATP binding site [chemical binding]; other site 296591000174 Q-loop/lid; other site 296591000175 ABC transporter signature motif; other site 296591000176 Walker B; other site 296591000177 D-loop; other site 296591000178 H-loop/switch region; other site 296591000179 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 296591000180 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 296591000181 Walker A/P-loop; other site 296591000182 ATP binding site [chemical binding]; other site 296591000183 Q-loop/lid; other site 296591000184 ABC transporter signature motif; other site 296591000185 Walker B; other site 296591000186 D-loop; other site 296591000187 H-loop/switch region; other site 296591000188 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 296591000189 succinic semialdehyde dehydrogenase; Region: PLN02278 296591000190 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 296591000191 tetramerization interface [polypeptide binding]; other site 296591000192 NAD(P) binding site [chemical binding]; other site 296591000193 catalytic residues [active] 296591000194 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 296591000195 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 296591000196 FMN binding site [chemical binding]; other site 296591000197 active site 296591000198 substrate binding site [chemical binding]; other site 296591000199 catalytic residue [active] 296591000200 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 296591000201 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 296591000202 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 296591000203 aldolase II superfamily protein; Provisional; Region: PRK07044 296591000204 intersubunit interface [polypeptide binding]; other site 296591000205 active site 296591000206 Zn2+ binding site [ion binding]; other site 296591000207 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591000208 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591000209 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 296591000210 dimerization interface [polypeptide binding]; other site 296591000211 Flagellin N-methylase; Region: FliB; cl00497 296591000212 Predicted flavoprotein [General function prediction only]; Region: COG0431 296591000213 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 296591000214 tRNA uridine 5-carboxymethylaminomethyl modification enzyme GidA; Validated; Region: PRK05192 296591000215 tRNA:m(5)U-54 methyltransferase; Region: gid_trmFO; TIGR00137 296591000216 NAD(FAD)-utilizing enzyme possibly involved in translation [Translation, ribosomal structure and biogenesis]; Region: Gid; COG1206 296591000217 GidA associated domain 3; Region: GIDA_assoc_3; pfam13932 296591000218 Predicted S-adenosylmethionine-dependent methyltransferase involved in bacterial cell division [Cell envelope biogenesis, outer membrane]; Region: GidB; COG0357 296591000219 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 296591000220 S-adenosylmethionine binding site [chemical binding]; other site 296591000221 LysE type translocator; Region: LysE; cl00565 296591000222 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 296591000223 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 296591000224 P-loop; other site 296591000225 Magnesium ion binding site [ion binding]; other site 296591000226 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 296591000227 Magnesium ion binding site [ion binding]; other site 296591000228 Predicted esterase of the alpha/beta hydrolase fold [General function prediction only]; Region: COG3545 296591000229 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 296591000230 nucleoid occlusion protein; Region: nucleoid_noc; TIGR04285 296591000231 ParB-like nuclease domain; Region: ParB; smart00470 296591000232 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 296591000233 putative C-terminal domain interface [polypeptide binding]; other site 296591000234 putative GSH binding site (G-site) [chemical binding]; other site 296591000235 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 296591000236 putative dimer interface [polypeptide binding]; other site 296591000237 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 296591000238 dimer interface [polypeptide binding]; other site 296591000239 N-terminal domain interface [polypeptide binding]; other site 296591000240 putative substrate binding pocket (H-site) [chemical binding]; other site 296591000241 Indigoidine synthase A like protein; Region: Indigoidine_A; pfam04227 296591000242 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 296591000243 Glutamine cyclotransferase [Posttranslational modification, protein turnover, chaperones]; Region: COG3823 296591000244 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 296591000245 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 296591000246 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 296591000247 PhnA protein; Region: PhnA; pfam03831 296591000248 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 296591000249 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 296591000250 tetramerization interface [polypeptide binding]; other site 296591000251 NAD(P) binding site [chemical binding]; other site 296591000252 catalytic residues [active] 296591000253 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 296591000254 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 296591000255 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 296591000256 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 296591000257 DctM-like transporters; Region: DctM; pfam06808 296591000258 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 296591000259 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 296591000260 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 296591000261 NAD(P) binding site [chemical binding]; other site 296591000262 catalytic residues [active] 296591000263 catalytic residues [active] 296591000264 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 296591000265 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591000266 NAD(P) binding site [chemical binding]; other site 296591000267 active site 296591000268 Ribulose bisphosphate carboxylase like proteins from nonphototrophic bacteria; Region: RLP_NonPhot; cd08207 296591000269 Ribulose 1,5-bisphosphate carboxylase, large subunit [Carbohydrate transport and metabolism]; Region: RbcL; COG1850 296591000270 dimer interface [polypeptide binding]; other site 296591000271 active site 296591000272 catalytic residue [active] 296591000273 metal binding site [ion binding]; metal-binding site 296591000274 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 296591000275 transcriptional regulator NanR; Provisional; Region: PRK03837 296591000276 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591000277 DNA-binding site [nucleotide binding]; DNA binding site 296591000278 FCD domain; Region: FCD; pfam07729 296591000279 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 296591000280 classical (c) SDRs; Region: SDR_c; cd05233 296591000281 NAD(P) binding site [chemical binding]; other site 296591000282 active site 296591000283 Heme-copper oxidase subunit I. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which catalyze the reduction of O2 and simultaneously pump protons across the membrane. The superfamily is...; Region: Heme_Cu_Oxidase_I; cl00275 296591000284 Uncharacterized Zn-ribbon-containing protein involved in phosphonate metabolism [Inorganic ion transport and metabolism]; Region: PhnA; COG2824 296591000285 PhnA Zinc-Ribbon; Region: PhnA_Zn_Ribbon; pfam08274 296591000286 PhnA protein; Region: PhnA; pfam03831 296591000287 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 296591000288 short chain dehydrogenase; Validated; Region: PRK08264 296591000289 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591000290 NAD(P) binding site [chemical binding]; other site 296591000291 active site 296591000292 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 296591000293 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 296591000294 putative NAD(P) binding site [chemical binding]; other site 296591000295 Uncharacterized protein conserved in bacteria (DUF2147); Region: DUF2147; pfam09917 296591000296 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 296591000297 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 296591000298 NADP binding site [chemical binding]; other site 296591000299 dimer interface [polypeptide binding]; other site 296591000300 short chain dehydrogenase; Provisional; Region: PRK06179 296591000301 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 296591000302 NADP binding site [chemical binding]; other site 296591000303 active site 296591000304 steroid binding site; other site 296591000305 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 296591000306 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 296591000307 YXWGXW repeat (2 copies); Region: YXWGXW; pfam12779 296591000308 Uncharacterized protein family (UPF0093); Region: UPF0093; cl00863 296591000309 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 296591000310 FAD binding domain; Region: FAD_binding_4; pfam01565 296591000311 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cl17302 296591000312 EF-hand domain pair; Region: EF_hand_5; pfam13499 296591000313 pseudo EF-hand loop; other site 296591000314 peptide binding pocket; other site 296591000315 Ca2+ binding site [ion binding]; other site 296591000316 Cobalamin adenosyltransferase; Region: Cob_adeno_trans; pfam01923 296591000317 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 296591000318 CoenzymeA binding site [chemical binding]; other site 296591000319 subunit interaction site [polypeptide binding]; other site 296591000320 PHB binding site; other site 296591000321 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 296591000322 Signal transduction histidine kinase regulating C4-dicarboxylate transport system [Signal transduction mechanisms]; Region: COG4191 296591000323 pyrimidine utilization transport protein G; Region: RutG; TIGR03616 296591000324 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 296591000325 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 296591000326 acetoacetyl-CoA synthetase; Provisional; Region: PRK03584 296591000327 Acetoacetyl-CoA synthetase (acetoacetate-CoA ligase, AACS); Region: AACS; cd05943 296591000328 acyl-activating enzyme (AAE) consensus motif; other site 296591000329 putative AMP binding site [chemical binding]; other site 296591000330 putative active site [active] 296591000331 putative CoA binding site [chemical binding]; other site 296591000332 Type III secretion system lipoprotein chaperone (YscW); Region: YscW; cl15825 296591000333 EamA-like transporter family; Region: EamA; pfam00892 296591000334 cell density-dependent motility repressor; Provisional; Region: PRK10082 296591000335 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591000336 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 296591000337 dimerization interface [polypeptide binding]; other site 296591000338 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591000339 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA)-like; uncharacterized subgroup; Region: M14_ASTE_ASPA_like_7; cd06910 296591000340 putative active site [active] 296591000341 Zn binding site [ion binding]; other site 296591000342 Flavin reductase like domain; Region: Flavin_Reduct; smart00903 296591000343 Activator of aromatic catabolism; Region: XylR_N; pfam06505 296591000344 V4R domain; Region: V4R; pfam02830 296591000345 Transcriptional regulators containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: PspF; COG1221 296591000346 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 296591000347 Walker A motif; other site 296591000348 ATP binding site [chemical binding]; other site 296591000349 Walker B motif; other site 296591000350 arginine finger; other site 296591000351 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 296591000352 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 296591000353 NAD-dependent benzaldehyde dehydrogenase II-like; Region: ALDH_BenzADH; cd07152 296591000354 NAD(P) binding site [chemical binding]; other site 296591000355 catalytic residues [active] 296591000356 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: FabG; COG1028 296591000357 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591000358 NAD(P) binding site [chemical binding]; other site 296591000359 3-alpha-hydroxysteroid dehydrogenase; Provisional; Region: PRK12428 296591000360 active site 296591000361 Protein of unknown function (DUF1302); Region: DUF1302; pfam06980 296591000362 Protein of unknown function (DUF1329); Region: DUF1329; pfam07044 296591000363 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 296591000364 Predicted exporters of the RND superfamily [General function prediction only]; Region: COG1033 296591000365 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 296591000366 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 296591000367 substrate binding pocket [chemical binding]; other site 296591000368 Peptidase M55, D-aminopeptidase dipeptide-binding protein family; Region: DAP_dppA_1; cd08663 296591000369 SxDxEG motif; other site 296591000370 active site 296591000371 metal binding site [ion binding]; metal-binding site 296591000372 homopentamer interface [polypeptide binding]; other site 296591000373 L-Aminopeptidase D-amidase/D-esterase (DmpA) family; DmpA catalyzes the release of N-terminal D and L amino acids from peptide susbtrates. DmpA is synthesized as a single polypeptide precursor, which is autocatalytically cleaved to the active...; Region: DmpA; cd02253 296591000374 homodimer interface [polypeptide binding]; other site 296591000375 homotetramer interface [polypeptide binding]; other site 296591000376 active site pocket [active] 296591000377 cleavage site 296591000378 glutathione ABC transporter permease GsiD; Provisional; Region: PRK15082 296591000379 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 296591000380 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 296591000381 dimer interface [polypeptide binding]; other site 296591000382 conserved gate region; other site 296591000383 putative PBP binding loops; other site 296591000384 ABC-ATPase subunit interface; other site 296591000385 glutathione ABC transporter permease GsiC; Provisional; Region: PRK15081 296591000386 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 296591000387 dimer interface [polypeptide binding]; other site 296591000388 conserved gate region; other site 296591000389 putative PBP binding loops; other site 296591000390 ABC-ATPase subunit interface; other site 296591000391 glutathione ABC transporter substrate-binding protein GsiB; Provisional; Region: PRK15413 296591000392 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 296591000393 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 296591000394 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 296591000395 Walker A/P-loop; other site 296591000396 ATP binding site [chemical binding]; other site 296591000397 Q-loop/lid; other site 296591000398 ABC transporter signature motif; other site 296591000399 Walker B; other site 296591000400 D-loop; other site 296591000401 H-loop/switch region; other site 296591000402 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 296591000403 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 296591000404 Walker A/P-loop; other site 296591000405 ATP binding site [chemical binding]; other site 296591000406 Q-loop/lid; other site 296591000407 ABC transporter signature motif; other site 296591000408 Walker B; other site 296591000409 D-loop; other site 296591000410 H-loop/switch region; other site 296591000411 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 296591000412 Ntn-hydrolase superfamily, L-Asparaginase type 2-like enzymes. This family includes Glycosylasparaginase, Taspase 1 and L-Asparaginase type 2 enzymes. Glycosylasparaginase catalyzes the hydrolysis of the glycosylamide bond of asparagine-linked...; Region: Ntn_Asparaginase_2_like; cl00635 296591000413 active site 296591000414 dimer interface [polypeptide binding]; other site 296591000415 L-Asparaginase type 2. L-Asparaginase hydrolyzes L-asparagine to L-aspartate and ammonia. The proenzyme undergoes an autoproteolytic cleavage into alpha and beta subunits to expose a threonine residue which becomes the N-terminal residue of the beta...; Region: Asparaginase_2; cd04701 296591000416 catalytic nucleophile [active] 296591000417 catalytic nucleophile [active] 296591000418 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 296591000419 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 296591000420 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 296591000421 putative active site [active] 296591000422 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 296591000423 dimer interface [polypeptide binding]; other site 296591000424 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 296591000425 metal binding site [ion binding]; metal-binding site 296591000426 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 296591000427 Predicted transcriptional regulator [Transcription]; Region: COG2378 296591000428 HTH domain; Region: HTH_11; pfam08279 296591000429 WYL domain; Region: WYL; pfam13280 296591000430 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 296591000431 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 296591000432 chromosome replication initiation inhibitor protein; Validated; Region: PRK03635 296591000433 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591000434 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 296591000435 dimerization interface [polypeptide binding]; other site 296591000436 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 296591000437 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_2; cd06335 296591000438 putative ligand binding site [chemical binding]; other site 296591000439 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 296591000440 dimerization interface [polypeptide binding]; other site 296591000441 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 296591000442 PAS domain; Region: PAS_9; pfam13426 296591000443 putative active site [active] 296591000444 heme pocket [chemical binding]; other site 296591000445 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 296591000446 GAF domain; Region: GAF; pfam01590 296591000447 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 296591000448 PAS fold; Region: PAS_3; pfam08447 296591000449 putative active site [active] 296591000450 heme pocket [chemical binding]; other site 296591000451 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 296591000452 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 296591000453 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 296591000454 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 296591000455 putative active site [active] 296591000456 heme pocket [chemical binding]; other site 296591000457 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 296591000458 dimer interface [polypeptide binding]; other site 296591000459 phosphorylation site [posttranslational modification] 296591000460 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 296591000461 ATP binding site [chemical binding]; other site 296591000462 Mg2+ binding site [ion binding]; other site 296591000463 G-X-G motif; other site 296591000464 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 296591000465 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 296591000466 CHASE domain; Region: CHASE; pfam03924 296591000467 PAS domain S-box; Region: sensory_box; TIGR00229 296591000468 PAS domain S-box; Region: sensory_box; TIGR00229 296591000469 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 296591000470 putative active site [active] 296591000471 heme pocket [chemical binding]; other site 296591000472 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 296591000473 dimer interface [polypeptide binding]; other site 296591000474 phosphorylation site [posttranslational modification] 296591000475 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 296591000476 ATP binding site [chemical binding]; other site 296591000477 Mg2+ binding site [ion binding]; other site 296591000478 G-X-G motif; other site 296591000479 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 296591000480 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 296591000481 active site 296591000482 metal binding site [ion binding]; metal-binding site 296591000483 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 296591000484 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_10; cd07251 296591000485 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591000486 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 296591000487 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591000488 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 296591000489 substrate binding pocket [chemical binding]; other site 296591000490 dimerization interface [polypeptide binding]; other site 296591000491 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 296591000492 active site 296591000493 substrate-binding site [chemical binding]; other site 296591000494 metal-binding site [ion binding] 296591000495 GTP binding site [chemical binding]; other site 296591000496 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 296591000497 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 296591000498 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 296591000499 dimer interface [polypeptide binding]; other site 296591000500 conserved gate region; other site 296591000501 putative PBP binding loops; other site 296591000502 ABC-ATPase subunit interface; other site 296591000503 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 296591000504 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 296591000505 Walker A/P-loop; other site 296591000506 ATP binding site [chemical binding]; other site 296591000507 Q-loop/lid; other site 296591000508 ABC transporter signature motif; other site 296591000509 Walker B; other site 296591000510 D-loop; other site 296591000511 H-loop/switch region; other site 296591000512 Glycine-zipper containing OmpA-like membrane domain; Region: Gly-zipper_OmpA; pfam13436 296591000513 threonine dehydratase; Provisional; Region: PRK07334 296591000514 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 296591000515 tetramer interface [polypeptide binding]; other site 296591000516 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591000517 catalytic residue [active] 296591000518 C-terminal ACT domain of biodegradative (catabolic) threonine dehydratase II (ThrD-II) and other related ACT domains; Region: ACT_ThrD-II-like; cd04886 296591000519 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 296591000520 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 296591000521 Walker A motif; other site 296591000522 ATP binding site [chemical binding]; other site 296591000523 Walker B motif; other site 296591000524 arginine finger; other site 296591000525 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 296591000526 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 296591000527 Walker A motif; other site 296591000528 ATP binding site [chemical binding]; other site 296591000529 Walker B motif; other site 296591000530 arginine finger; other site 296591000531 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 296591000532 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591000533 NAD(P) binding site [chemical binding]; other site 296591000534 active site 296591000535 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 296591000536 cofactor binding site; other site 296591000537 metal binding site [ion binding]; metal-binding site 296591000538 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_b; cd00914 296591000539 aromatic arch; other site 296591000540 DCoH dimer interaction site [polypeptide binding]; other site 296591000541 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 296591000542 DCoH tetramer interaction site [polypeptide binding]; other site 296591000543 substrate binding site [chemical binding]; other site 296591000544 ATP-dependent DNA helicase RecQ; Region: recQ; TIGR01389 296591000545 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 296591000546 ATP binding site [chemical binding]; other site 296591000547 putative Mg++ binding site [ion binding]; other site 296591000548 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 296591000549 nucleotide binding region [chemical binding]; other site 296591000550 ATP-binding site [chemical binding]; other site 296591000551 This DNA-binding domain is found in the RecQ helicase among others and has a helix-turn-helix structure; Region: RQC; smart00956 296591000552 HRDC domain; Region: HRDC; pfam00570 296591000553 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 296591000554 active site residue [active] 296591000555 Methionine synthase I (cobalamin-dependent), methyltransferase domain [Amino acid transport and metabolism]; Region: MetH; COG0646 296591000556 Homocysteine S-methyltransferase; Region: S-methyl_trans; pfam02574 296591000557 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 296591000558 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 296591000559 ligand binding site [chemical binding]; other site 296591000560 flexible hinge region; other site 296591000561 Methionine synthase I, cobalamin-binding domain [Amino acid transport and metabolism]; Region: MetH; COG1410 296591000562 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 296591000563 substrate binding pocket [chemical binding]; other site 296591000564 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 296591000565 B12 binding site [chemical binding]; other site 296591000566 cobalt ligand [ion binding]; other site 296591000567 Vitamin B12 dependent methionine synthase, activation domain; Region: Met_synt_B12; pfam02965 296591000568 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 296591000569 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 296591000570 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 296591000571 ligand binding site [chemical binding]; other site 296591000572 flexible hinge region; other site 296591000573 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 296591000574 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 296591000575 effector domain of the CAP family of transcription factors; members include CAP (or cAMP receptor protein (CRP)), which binds cAMP, FNR (fumarate and nitrate reduction), which uses an iron-sulfur cluster to sense oxygen) and CooA, a heme containing CO...; Region: CAP_ED; cl00047 296591000576 ligand binding site [chemical binding]; other site 296591000577 flexible hinge region; other site 296591000578 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 296591000579 Predicted ATPase with chaperone activity [Posttranslational modification, protein turnover, chaperones]; Region: COG0606 296591000580 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 296591000581 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase; pfam01078 296591000582 Magnesium chelatase, subunit ChlI; Region: Mg_chelatase_2; pfam13335 296591000583 Bacterial protein of unknown function (Gcw_chp); Region: Gcw_chp; cl09901 296591000584 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 296591000585 Nitrogen regulatory protein P-II; Region: P-II; smart00938 296591000586 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 296591000587 Membrane carboxypeptidase (penicillin-binding protein) [Cell envelope biogenesis, outer membrane]; Region: MrcB; COG0744 296591000588 Transglycosylase; Region: Transgly; pfam00912 296591000589 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 296591000590 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 296591000591 glycolate oxidase FAD binding subunit; Provisional; Region: glcE; PRK11282 296591000592 FAD binding domain; Region: FAD_binding_4; pfam01565 296591000593 glycolate oxidase iron-sulfur subunit; Provisional; Region: glcF; PRK11274 296591000594 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 296591000595 Cysteine-rich domain; Region: CCG; pfam02754 296591000596 Cysteine-rich domain; Region: CCG; pfam02754 296591000597 Uncharacterized conserved protein [Function unknown]; Region: COG3791 296591000598 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 296591000599 catalytic residues [active] 296591000600 dimer interface [polypeptide binding]; other site 296591000601 lysophospholipid transporter LplT; Provisional; Region: PRK11195 296591000602 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 296591000603 alanine racemase; Reviewed; Region: dadX; PRK03646 296591000604 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes, Proteobacterial Alanine Racemases; Region: PLPDE_III_AR_proteobact; cd06827 296591000605 active site 296591000606 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 296591000607 substrate binding site [chemical binding]; other site 296591000608 catalytic residues [active] 296591000609 dimer interface [polypeptide binding]; other site 296591000610 putative acetyltransferase; Provisional; Region: PRK03624 296591000611 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 296591000612 Coenzyme A binding pocket [chemical binding]; other site 296591000613 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 296591000614 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 296591000615 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 296591000616 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 296591000617 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 296591000618 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591000619 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 296591000620 putative substrate binding pocket [chemical binding]; other site 296591000621 trimer interface [polypeptide binding]; other site 296591000622 DNA repair protein RadA; Provisional; Region: PRK11823 296591000623 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 296591000624 Walker A motif; other site 296591000625 ATP binding site [chemical binding]; other site 296591000626 Walker B motif; other site 296591000627 Subunit ChlI of Mg-chelatase; Region: ChlI; pfam13541 296591000628 Calcineurin-like phosphoesterase superfamily domain; Region: Metallophos_2; pfam12850 296591000629 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 296591000630 active site 296591000631 metal binding site [ion binding]; metal-binding site 296591000632 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 296591000633 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 296591000634 homodimer interface [polypeptide binding]; other site 296591000635 substrate-cofactor binding pocket; other site 296591000636 catalytic residue [active] 296591000637 Zinc-finger domain; Region: zf-CHCC; cl01821 296591000638 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 296591000639 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 296591000640 putative active site [active] 296591000641 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 296591000642 FMN binding site [chemical binding]; other site 296591000643 substrate binding site [chemical binding]; other site 296591000644 putative catalytic residue [active] 296591000645 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 296591000646 dimerization interface [polypeptide binding]; other site 296591000647 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 296591000648 dimer interface [polypeptide binding]; other site 296591000649 phosphorylation site [posttranslational modification] 296591000650 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 296591000651 ATP binding site [chemical binding]; other site 296591000652 G-X-G motif; other site 296591000653 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 296591000654 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 296591000655 active site 296591000656 phosphorylation site [posttranslational modification] 296591000657 intermolecular recognition site; other site 296591000658 dimerization interface [polypeptide binding]; other site 296591000659 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 296591000660 DNA binding site [nucleotide binding] 296591000661 muropeptide transporter; Validated; Region: ampG; cl17669 296591000662 Peptidase family M48; Region: Peptidase_M48; pfam01435 296591000663 CBS-domain-containing membrane protein [Signal transduction mechanisms]; Region: COG3448 296591000664 HPP family; Region: HPP; pfam04982 296591000665 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 296591000666 CHASE3 domain; Region: CHASE3; cl05000 296591000667 PAS domain S-box; Region: sensory_box; TIGR00229 296591000668 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 296591000669 putative active site [active] 296591000670 heme pocket [chemical binding]; other site 296591000671 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 296591000672 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 296591000673 putative active site [active] 296591000674 heme pocket [chemical binding]; other site 296591000675 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 296591000676 dimer interface [polypeptide binding]; other site 296591000677 phosphorylation site [posttranslational modification] 296591000678 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 296591000679 ATP binding site [chemical binding]; other site 296591000680 Mg2+ binding site [ion binding]; other site 296591000681 G-X-G motif; other site 296591000682 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 296591000683 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 296591000684 active site 296591000685 phosphorylation site [posttranslational modification] 296591000686 intermolecular recognition site; other site 296591000687 dimerization interface [polypeptide binding]; other site 296591000688 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 296591000689 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 296591000690 active site 296591000691 phosphorylation site [posttranslational modification] 296591000692 intermolecular recognition site; other site 296591000693 dimerization interface [polypeptide binding]; other site 296591000694 Response regulator receiver domain; Region: Response_reg; pfam00072 296591000695 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 296591000696 active site 296591000697 phosphorylation site [posttranslational modification] 296591000698 intermolecular recognition site; other site 296591000699 dimerization interface [polypeptide binding]; other site 296591000700 K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]; Region: TrkA; COG0569 296591000701 TrkA-N domain; Region: TrkA_N; pfam02254 296591000702 TrkA-C domain; Region: TrkA_C; pfam02080 296591000703 potassium uptake protein, TrkH family; Region: 2a38; TIGR00933 296591000704 Trk-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: TrkG; COG0168 296591000705 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 296591000706 putative catalytic site [active] 296591000707 putative metal binding site [ion binding]; other site 296591000708 putative phosphate binding site [ion binding]; other site 296591000709 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 296591000710 putative metal binding site [ion binding]; other site 296591000711 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 296591000712 active site 296591000713 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 296591000714 aspartyl/glutamyl-tRNA amidotransferase subunit B; Validated; Region: gatB; PRK05477 296591000715 GatB/GatE catalytic domain; Region: GatB_N; pfam02934 296591000716 GatB domain; Region: GatB_Yqey; smart00845 296591000717 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 296591000718 aspartyl/glutamyl-tRNA amidotransferase subunit A; Reviewed; Region: gatA; PRK00012 296591000719 aspartyl/glutamyl-tRNA amidotransferase subunit C; Reviewed; Region: gatC; PRK00034 296591000720 rod shape-determining protein MreB; Provisional; Region: PRK13927 296591000721 MreB and similar proteins; Region: MreB_like; cd10225 296591000722 nucleotide binding site [chemical binding]; other site 296591000723 Mg binding site [ion binding]; other site 296591000724 putative protofilament interaction site [polypeptide binding]; other site 296591000725 RodZ interaction site [polypeptide binding]; other site 296591000726 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreC; COG1792 296591000727 rod shape-determining protein MreC; Region: MreC; pfam04085 296591000728 Cell shape-determining protein [Cell envelope biogenesis, outer membrane]; Region: MreD; COG2891 296591000729 penicillin-binding protein 2; Region: pbp2_mrdA; TIGR03423 296591000730 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 296591000731 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 296591000732 hypothetical protein; Provisional; Region: PRK10621 296591000733 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 296591000734 Response regulator receiver domain; Region: Response_reg; pfam00072 296591000735 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 296591000736 active site 296591000737 phosphorylation site [posttranslational modification] 296591000738 intermolecular recognition site; other site 296591000739 dimerization interface [polypeptide binding]; other site 296591000740 PAS domain S-box; Region: sensory_box; TIGR00229 296591000741 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 296591000742 putative active site [active] 296591000743 heme pocket [chemical binding]; other site 296591000744 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 296591000745 dimer interface [polypeptide binding]; other site 296591000746 phosphorylation site [posttranslational modification] 296591000747 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 296591000748 ATP binding site [chemical binding]; other site 296591000749 Mg2+ binding site [ion binding]; other site 296591000750 G-X-G motif; other site 296591000751 choline dehydrogenase; Validated; Region: PRK02106 296591000752 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 296591000753 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 296591000754 Permease; Region: Permease; pfam02405 296591000755 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 296591000756 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 296591000757 Walker A/P-loop; other site 296591000758 ATP binding site [chemical binding]; other site 296591000759 Q-loop/lid; other site 296591000760 ABC transporter signature motif; other site 296591000761 Walker B; other site 296591000762 D-loop; other site 296591000763 H-loop/switch region; other site 296591000764 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 296591000765 mce related protein; Region: MCE; pfam02470 296591000766 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 296591000767 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 296591000768 ligand binding site [chemical binding]; other site 296591000769 flexible hinge region; other site 296591000770 inner membrane protein; Provisional; Region: PRK11715 296591000771 sensory histidine kinase CreC; Provisional; Region: PRK11100 296591000772 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 296591000773 dimer interface [polypeptide binding]; other site 296591000774 phosphorylation site [posttranslational modification] 296591000775 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 296591000776 ATP binding site [chemical binding]; other site 296591000777 G-X-G motif; other site 296591000778 DNA-binding response regulator CreB; Provisional; Region: PRK11083 296591000779 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 296591000780 active site 296591000781 phosphorylation site [posttranslational modification] 296591000782 intermolecular recognition site; other site 296591000783 dimerization interface [polypeptide binding]; other site 296591000784 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 296591000785 DNA binding site [nucleotide binding] 296591000786 MarC family integral membrane protein; Region: MarC; cl00919 296591000787 short chain dehydrogenase; Provisional; Region: PRK06123 296591000788 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591000789 NAD(P) binding site [chemical binding]; other site 296591000790 active site 296591000791 2-hydroxychromene-2-carboxylate isomerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: NahD; COG3917 296591000792 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 296591000793 putative catalytic residue [active] 296591000794 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 296591000795 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 296591000796 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 296591000797 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 296591000798 C-terminal domain interface [polypeptide binding]; other site 296591000799 GSH binding site (G-site) [chemical binding]; other site 296591000800 dimer interface [polypeptide binding]; other site 296591000801 C-terminal, alpha helical domain of Class Beta Glutathione S-transferases; Region: GST_C_Beta; cd03188 296591000802 N-terminal domain interface [polypeptide binding]; other site 296591000803 dimer interface [polypeptide binding]; other site 296591000804 substrate binding pocket (H-site) [chemical binding]; other site 296591000805 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 296591000806 Thermotoga maritima CorA-like family; Region: TmCorA-like; cd12822 296591000807 oligomer interface [polypeptide binding]; other site 296591000808 metal binding site [ion binding]; metal-binding site 296591000809 metal binding site [ion binding]; metal-binding site 296591000810 putative Cl binding site [ion binding]; other site 296591000811 aspartate ring; other site 296591000812 basic sphincter; other site 296591000813 hydrophobic gate; other site 296591000814 periplasmic entrance; other site 296591000815 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 296591000816 dimer interface [polypeptide binding]; other site 296591000817 active site 296591000818 aspartate-rich active site metal binding site; other site 296591000819 allosteric magnesium binding site [ion binding]; other site 296591000820 Schiff base residues; other site 296591000821 Uncharacterized protein family (UPF0093); Region: UPF0093; pfam03653 296591000822 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 296591000823 dimer interface [polypeptide binding]; other site 296591000824 [2Fe-2S] cluster binding site [ion binding]; other site 296591000825 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]; Region: COG2945 296591000826 D-alanyl-D-alanine carboxypeptidase [Cell envelope biogenesis, outer membrane]; Region: DacC; COG1686 296591000827 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 296591000828 Penicillin-binding protein 5, C-terminal domain; Region: PBP5_C; smart00936 296591000829 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 296591000830 S17 interaction site [polypeptide binding]; other site 296591000831 S8 interaction site; other site 296591000832 16S rRNA interaction site [nucleotide binding]; other site 296591000833 streptomycin interaction site [chemical binding]; other site 296591000834 23S rRNA interaction site [nucleotide binding]; other site 296591000835 aminoacyl-tRNA interaction site (A-site) [nucleotide binding]; other site 296591000836 30S ribosomal protein S7; Validated; Region: PRK05302 296591000837 elongation factor G; Reviewed; Region: PRK00007 296591000838 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 296591000839 G1 box; other site 296591000840 putative GEF interaction site [polypeptide binding]; other site 296591000841 GTP/Mg2+ binding site [chemical binding]; other site 296591000842 Switch I region; other site 296591000843 G2 box; other site 296591000844 G3 box; other site 296591000845 Switch II region; other site 296591000846 G4 box; other site 296591000847 G5 box; other site 296591000848 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 296591000849 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 296591000850 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 296591000851 elongation factor Tu; Reviewed; Region: PRK00049 296591000852 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 296591000853 G1 box; other site 296591000854 GEF interaction site [polypeptide binding]; other site 296591000855 GTP/Mg2+ binding site [chemical binding]; other site 296591000856 Switch I region; other site 296591000857 G2 box; other site 296591000858 G3 box; other site 296591000859 Switch II region; other site 296591000860 G4 box; other site 296591000861 G5 box; other site 296591000862 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 296591000863 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 296591000864 Antibiotic Binding Site [chemical binding]; other site 296591000865 30S ribosomal protein S10; Reviewed; Region: rpsJ; PRK00596 296591000866 50S ribosomal protein L3; Validated; Region: rplC; PRK00001 296591000867 50S ribosomal protein L4; Provisional; Region: rplD; PRK05319 296591000868 50S ribosomal protein L23; Reviewed; Region: rplW; PRK05738 296591000869 50S ribosomal protein L2; Validated; Region: rplB; PRK09374 296591000870 Ribosomal Proteins L2, RNA binding domain; Region: Ribosomal_L2; pfam00181 296591000871 Ribosomal Proteins L2, C-terminal domain; Region: Ribosomal_L2_C; pfam03947 296591000872 30S ribosomal protein S19; Reviewed; Region: rpsS; PRK00357 296591000873 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 296591000874 putative translocon binding site; other site 296591000875 protein-rRNA interface [nucleotide binding]; other site 296591000876 30S ribosomal protein S3; Reviewed; Region: rpsC; PRK00310 296591000877 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 296591000878 G-X-X-G motif; other site 296591000879 Ribosomal protein S3, C-terminal domain; Region: Ribosomal_S3_C; pfam00189 296591000880 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 296591000881 23S rRNA interface [nucleotide binding]; other site 296591000882 5S rRNA interface [nucleotide binding]; other site 296591000883 putative antibiotic binding site [chemical binding]; other site 296591000884 L25 interface [polypeptide binding]; other site 296591000885 L27 interface [polypeptide binding]; other site 296591000886 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 296591000887 23S rRNA interface [nucleotide binding]; other site 296591000888 putative translocon interaction site; other site 296591000889 signal recognition particle (SRP54) interaction site; other site 296591000890 L23 interface [polypeptide binding]; other site 296591000891 trigger factor interaction site; other site 296591000892 30S ribosomal protein S17; Reviewed; Region: rpsQ; PRK05610 296591000893 Peroxiredoxin (PRX) family, PRX5-like subfamily; members are similar to the human protein, PRX5, a homodimeric TRX peroxidase, widely expressed in tissues and found cellularly in mitochondria, peroxisomes and the cytosol. The cellular location of PRX5...; Region: PRX5_like; cd03013 296591000894 catalytic triad [active] 296591000895 dimer interface [polypeptide binding]; other site 296591000896 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 296591000897 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 296591000898 Coenzyme A binding pocket [chemical binding]; other site 296591000899 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cl00859 296591000900 Cytochrome C' Region: Cytochrom_C_2; pfam01322 296591000901 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 296591000902 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 296591000903 catalytic residues [active] 296591000904 Protein of unknown function (DUF4197); Region: DUF4197; pfam13852 296591000905 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 296591000906 2-oxoisovalerate dehydrogenase E1 alpha subunit N terminal; Region: OxoDH_E1alpha_N; pfam12573 296591000907 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, alpha subunit [Energy production and conversion]; Region: AcoA; COG1071 296591000908 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 296591000909 tetramer interface [polypeptide binding]; other site 296591000910 TPP-binding site [chemical binding]; other site 296591000911 heterodimer interface [polypeptide binding]; other site 296591000912 phosphorylation loop region [posttranslational modification] 296591000913 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 296591000914 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 296591000915 alpha subunit interface [polypeptide binding]; other site 296591000916 TPP binding site [chemical binding]; other site 296591000917 heterodimer interface [polypeptide binding]; other site 296591000918 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 296591000919 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 296591000920 2-oxoisovalerate dehydrogenase E2 component; Region: PLN02528 296591000921 E3 interaction surface; other site 296591000922 lipoyl attachment site [posttranslational modification]; other site 296591000923 e3 binding domain; Region: E3_binding; pfam02817 296591000924 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 296591000925 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 296591000926 SoxW family; SoxW is a bacterial periplasmic TRX, containing a redox active CXXC motif, encoded by a genetic locus (sox operon) involved in thiosulfate oxidation. Sulfur bacteria oxidize sulfur compounds to provide reducing equivalents for carbon dioxide...; Region: SoxW; cd02951 296591000927 catalytic residues [active] 296591000928 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 296591000929 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 296591000930 formyl-coenzyme A transferase; Provisional; Region: PRK05398 296591000931 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 296591000932 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 296591000933 CoA-transferase family III; Region: CoA_transf_3; pfam02515 296591000934 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591000935 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591000936 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 296591000937 dimerization interface [polypeptide binding]; other site 296591000938 class II aldolase/adducin domain protein; Provisional; Region: PRK07090 296591000939 intersubunit interface [polypeptide binding]; other site 296591000940 active site 296591000941 Zn2+ binding site [ion binding]; other site 296591000942 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591000943 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 296591000944 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 296591000945 substrate binding pocket [chemical binding]; other site 296591000946 membrane-bound complex binding site; other site 296591000947 RibD C-terminal domain; Region: RibD_C; cl17279 296591000948 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 296591000949 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 296591000950 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 296591000951 Domain of unknown function (DU1801); Region: DUF1801; pfam08818 296591000952 cyanate hydratase; Validated; Region: PRK02866 296591000953 Cyanase C-terminal domain. Cyanase (Cyanate lyase) is responsible for the hydrolysis of cyanate. It catalyzes the reaction of cyanate with bicarbonate to produce ammonia and carbon dioxide. This allows organisms that possess the enzyme to overcome the...; Region: Cyanase_C; cd00559 296591000954 oligomer interface [polypeptide binding]; other site 296591000955 active site 296591000956 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 296591000957 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 296591000958 Walker A/P-loop; other site 296591000959 ATP binding site [chemical binding]; other site 296591000960 Q-loop/lid; other site 296591000961 ABC transporter signature motif; other site 296591000962 Walker B; other site 296591000963 D-loop; other site 296591000964 H-loop/switch region; other site 296591000965 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 296591000966 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 296591000967 dimer interface [polypeptide binding]; other site 296591000968 conserved gate region; other site 296591000969 putative PBP binding loops; other site 296591000970 ABC-ATPase subunit interface; other site 296591000971 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 296591000972 NMT1-like family; Region: NMT1_2; pfam13379 296591000973 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 296591000974 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 296591000975 active site 296591000976 phosphorylation site [posttranslational modification] 296591000977 intermolecular recognition site; other site 296591000978 dimerization interface [polypeptide binding]; other site 296591000979 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 296591000980 DNA binding residues [nucleotide binding] 296591000981 dimerization interface [polypeptide binding]; other site 296591000982 PAS domain S-box; Region: sensory_box; TIGR00229 296591000983 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 296591000984 putative active site [active] 296591000985 heme pocket [chemical binding]; other site 296591000986 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 296591000987 Histidine kinase; Region: HisKA_3; pfam07730 296591000988 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 296591000989 ATP binding site [chemical binding]; other site 296591000990 Mg2+ binding site [ion binding]; other site 296591000991 G-X-G motif; other site 296591000992 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 296591000993 putative substrate translocation pore; other site 296591000994 Major Facilitator Superfamily; Region: MFS_1; pfam07690 296591000995 PTS_IIA, PTS system, mannose/sorbose specific IIA subunit. The bacterial phosphoenolpyruvate: sugar phosphotransferase system (PTS) is a multi-protein system involved in the regulation of a variety of metabolic and transcriptional processes. This family...; Region: PTS_IIA_man; cd00006 296591000996 active pocket/dimerization site; other site 296591000997 active site 296591000998 phosphorylation site [posttranslational modification] 296591000999 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 296591001000 regulatory protein interface [polypeptide binding]; other site 296591001001 active site 296591001002 regulatory phosphorylation site [posttranslational modification]; other site 296591001003 Phosphoenolpyruvate-protein kinase (PTS system EI component in bacteria) [Carbohydrate transport and metabolism]; Region: PtsA; COG1080 296591001004 PEP-utilising enzyme, N-terminal; Region: PEP-utilisers_N; pfam05524 296591001005 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 296591001006 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 296591001007 A sub-family of peptidase family C39. 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...; Region: Peptidase_C39_likeD; cd02421 296591001008 type I secretion system ATPase, LssB family; Region: type_I_sec_LssB; TIGR03375 296591001009 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 296591001010 ATP-binding cassette domain of bacteriocin exporters, subfamily C; Region: ABCC_bacteriocin_exporters; cd03245 296591001011 Walker A/P-loop; other site 296591001012 ATP binding site [chemical binding]; other site 296591001013 Q-loop/lid; other site 296591001014 ABC transporter signature motif; other site 296591001015 Walker B; other site 296591001016 D-loop; other site 296591001017 H-loop/switch region; other site 296591001018 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 296591001019 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 296591001020 HlyD family secretion protein; Region: HlyD_3; pfam13437 296591001021 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 296591001022 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 296591001023 DNA binding residues [nucleotide binding] 296591001024 dimerization interface [polypeptide binding]; other site 296591001025 Calx-beta domain; Region: Calx-beta; cl02522 296591001026 VCBS repeat; Region: VCBS_repeat; TIGR01965 296591001027 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 296591001028 T1SS-143 repeat domain; Region: T1SS_rpt_143; TIGR03660 296591001029 type I secretion C-terminal target domain (VC_A0849 subclass); Region: T1SS_VCA0849; TIGR03661 296591001030 Calx-beta domain; Region: Calx-beta; cl02522 296591001031 VCBS repeat; Region: VCBS_repeat; TIGR01965 296591001032 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 296591001033 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 296591001034 N-acetyl-D-glucosamine binding site [chemical binding]; other site 296591001035 catalytic residue [active] 296591001036 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 296591001037 dimerization interface [polypeptide binding]; other site 296591001038 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 296591001039 metal binding site [ion binding]; metal-binding site 296591001040 active site 296591001041 I-site; other site 296591001042 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 296591001043 Bacterial transglutaminase-like cysteine proteinase BTLCP; Region: BTLCP; cl17596 296591001044 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 296591001045 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 296591001046 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 296591001047 ligand binding site [chemical binding]; other site 296591001048 EamA-like transporter family; Region: EamA; pfam00892 296591001049 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 296591001050 lipoyl synthase; Provisional; Region: PRK05481 296591001051 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 296591001052 FeS/SAM binding site; other site 296591001053 lipoate-protein ligase B; Provisional; Region: PRK14346 296591001054 Fic family protein [Function unknown]; Region: COG3177 296591001055 Fic/DOC family N-terminal; Region: Fic_N; pfam13784 296591001056 Fic/DOC family; Region: Fic; pfam02661 296591001057 MarR family; Region: MarR_2; pfam12802 296591001058 Protein of unknown function (DUF493); Region: DUF493; cl01102 296591001059 D-Alanine aminotransferase (D-AAT_like): D-amino acid aminotransferase catalyzes transamination between D-amino acids and their respective alpha-keto acids. It plays a major role in the synthesis of bacterial cell wall components like D-alanine and...; Region: D-AAT_like; cd01558 296591001060 Branched-chain amino acid aminotransferase/4-amino-4-deoxychorismate lyase [Amino acid transport and metabolism / Coenzyme metabolism]; Region: IlvE; COG0115 296591001061 homodimer interface [polypeptide binding]; other site 296591001062 substrate-cofactor binding pocket; other site 296591001063 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591001064 catalytic residue [active] 296591001065 Uncharacterized protein conserved in bacteria (DUF2062); Region: DUF2062; pfam09835 296591001066 ATP synthase I chain; Region: ATP_synt_I; pfam03899 296591001067 F0F1-type ATP synthase, subunit a [Energy production and conversion]; Region: AtpB; COG0356 296591001068 F0F1 ATP synthase subunit A; Validated; Region: PRK05815 296591001069 F0F1 ATP synthase subunit C; Validated; Region: PRK06876 296591001070 F0F1 ATP synthase subunit B; Validated; Region: PRK05759 296591001071 F0F1-type ATP synthase, subunit b [Energy production and conversion]; Region: AtpF; COG0711 296591001072 F0F1 ATP synthase subunit delta; Validated; Region: PRK05758 296591001073 ATP synthase delta (OSCP) subunit; Region: OSCP; pfam00213 296591001074 F0F1 ATP synthase subunit alpha; Validated; Region: PRK09281 296591001075 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 296591001076 F1 ATP synthase alpha, central domain. The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to...; Region: F1_ATPase_alpha; cd01132 296591001077 beta subunit interaction interface [polypeptide binding]; other site 296591001078 Walker A motif; other site 296591001079 ATP binding site [chemical binding]; other site 296591001080 Walker B motif; other site 296591001081 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 296591001082 mitochondrial ATP synthase gamma subunit; Region: F1-ATPase_gamma; cd12151 296591001083 core domain interface [polypeptide binding]; other site 296591001084 delta subunit interface [polypeptide binding]; other site 296591001085 epsilon subunit interface [polypeptide binding]; other site 296591001086 F0F1 ATP synthase subunit beta; Validated; Region: PRK09280 296591001087 ATP synthase alpha/beta family, beta-barrel domain; Region: ATP-synt_ab_N; pfam02874 296591001088 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 296591001089 alpha subunit interaction interface [polypeptide binding]; other site 296591001090 Walker A motif; other site 296591001091 ATP binding site [chemical binding]; other site 296591001092 Walker B motif; other site 296591001093 inhibitor binding site; inhibition site 296591001094 ATP synthase alpha/beta chain, C terminal domain; Region: ATP-synt_ab_C; pfam00306 296591001095 F0F1 ATP synthase subunit epsilon; Validated; Region: atpC; PRK00571 296591001096 mitochondrial ATP synthase delta subunit; Region: F1-ATPase_delta; cd12152 296591001097 gamma subunit interface [polypeptide binding]; other site 296591001098 epsilon subunit interface [polypeptide binding]; other site 296591001099 LBP interface [polypeptide binding]; other site 296591001100 Repair protein; Region: Repair_PSII; pfam04536 296591001101 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]; Region: COG1512 296591001102 Repair protein; Region: Repair_PSII; pfam04536 296591001103 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 296591001104 SnoaL-like domain; Region: SnoaL_3; pfam13474 296591001105 SnoaL-like domain; Region: SnoaL_2; pfam12680 296591001106 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 296591001107 Protein of unknown function (DUF2946); Region: DUF2944; pfam11161 296591001108 Cytochrome c5 [Energy production and conversion]; Region: CycB; COG3245 296591001109 HipA N-terminal domain; Region: Couple_hipA; pfam13657 296591001110 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 296591001111 HipA-like N-terminal domain; Region: HipA_N; pfam07805 296591001112 HipA-like C-terminal domain; Region: HipA_C; pfam07804 296591001113 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 296591001114 non-specific DNA binding site [nucleotide binding]; other site 296591001115 salt bridge; other site 296591001116 sequence-specific DNA binding site [nucleotide binding]; other site 296591001117 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 296591001118 Helix-turn-helix domain; Region: HTH_28; pfam13518 296591001119 putative transposase OrfB; Reviewed; Region: PHA02517 296591001120 HTH-like domain; Region: HTH_21; pfam13276 296591001121 Integrase core domain; Region: rve; pfam00665 296591001122 Integrase core domain; Region: rve_2; pfam13333 296591001123 Transposase; Region: HTH_Tnp_1; pfam01527 296591001124 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 296591001125 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 296591001126 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 296591001127 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 296591001128 Transcriptional regulators [Transcription]; Region: PurR; COG1609 296591001129 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 296591001130 DNA binding site [nucleotide binding] 296591001131 domain linker motif; other site 296591001132 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 296591001133 dimerization interface [polypeptide binding]; other site 296591001134 ligand binding site [chemical binding]; other site 296591001135 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 296591001136 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591001137 NAD(P) binding site [chemical binding]; other site 296591001138 active site 296591001139 Predicted membrane protein [Function unknown]; Region: COG2259 296591001140 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 296591001141 YCII-related domain; Region: YCII; cl00999 296591001142 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 296591001143 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 296591001144 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 296591001145 homotrimer interaction site [polypeptide binding]; other site 296591001146 putative active site [active] 296591001147 Uncharacterized conserved protein [Function unknown]; Region: COG1359 296591001148 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 296591001149 TM-ABC transporter signature motif; other site 296591001150 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 296591001151 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 296591001152 TM-ABC transporter signature motif; other site 296591001153 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 296591001154 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 296591001155 Walker A/P-loop; other site 296591001156 ATP binding site [chemical binding]; other site 296591001157 Q-loop/lid; other site 296591001158 ABC transporter signature motif; other site 296591001159 Walker B; other site 296591001160 D-loop; other site 296591001161 H-loop/switch region; other site 296591001162 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 296591001163 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 296591001164 Walker A/P-loop; other site 296591001165 ATP binding site [chemical binding]; other site 296591001166 Q-loop/lid; other site 296591001167 ABC transporter signature motif; other site 296591001168 Walker B; other site 296591001169 D-loop; other site 296591001170 H-loop/switch region; other site 296591001171 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 296591001172 chlorocatechol 1,2-dioxygenase; Region: chlorocat_1_2; TIGR02465 296591001173 active site 296591001174 classical (c) SDRs; Region: SDR_c; cd05233 296591001175 NAD(P) binding site [chemical binding]; other site 296591001176 active site 296591001177 Prokaryotic protein of unknown function (DUF849); Region: DUF849; pfam05853 296591001178 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 296591001179 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 296591001180 NAD(P) binding site [chemical binding]; other site 296591001181 Cupin domain; Region: Cupin_2; cl17218 296591001182 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 296591001183 ABC transporter, substrate-binding protein, aliphatic sulfonates family; Region: SsuA_fam; TIGR01728 296591001184 substrate binding pocket [chemical binding]; other site 296591001185 membrane-bound complex binding site; other site 296591001186 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591001187 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 296591001188 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 296591001189 putative ligand binding site [chemical binding]; other site 296591001190 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 296591001191 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 296591001192 trimer interface [polypeptide binding]; other site 296591001193 putative metal binding site [ion binding]; other site 296591001194 T5orf172 domain; Region: T5orf172; pfam10544 296591001195 Domain of unknown function (DUF3596); Region: DUF3596; pfam12167 296591001196 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 296591001197 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 296591001198 active site 296591001199 DNA binding site [nucleotide binding] 296591001200 Int/Topo IB signature motif; other site 296591001201 Cro/C1-type HTH DNA-binding domain; Region: HTH_26; pfam13443 296591001202 non-specific DNA binding site [nucleotide binding]; other site 296591001203 salt bridge; other site 296591001204 sequence-specific DNA binding site [nucleotide binding]; other site 296591001205 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 296591001206 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 296591001207 salt bridge; other site 296591001208 non-specific DNA binding site [nucleotide binding]; other site 296591001209 sequence-specific DNA binding site [nucleotide binding]; other site 296591001210 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 296591001211 Transcriptional regulator [Transcription]; Region: IclR; COG1414 296591001212 Bacterial transcriptional regulator; Region: IclR; pfam01614 296591001213 allantoate amidohydrolase; Reviewed; Region: PRK12893 296591001214 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 296591001215 active site 296591001216 metal binding site [ion binding]; metal-binding site 296591001217 dimer interface [polypeptide binding]; other site 296591001218 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 296591001219 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_8; cd08495 296591001220 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 296591001221 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 296591001222 dimer interface [polypeptide binding]; other site 296591001223 conserved gate region; other site 296591001224 putative PBP binding loops; other site 296591001225 ABC-ATPase subunit interface; other site 296591001226 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 296591001227 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 296591001228 dimer interface [polypeptide binding]; other site 296591001229 conserved gate region; other site 296591001230 putative PBP binding loops; other site 296591001231 ABC-ATPase subunit interface; other site 296591001232 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 296591001233 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 296591001234 Walker A/P-loop; other site 296591001235 ATP binding site [chemical binding]; other site 296591001236 Q-loop/lid; other site 296591001237 ABC transporter signature motif; other site 296591001238 Walker B; other site 296591001239 D-loop; other site 296591001240 H-loop/switch region; other site 296591001241 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 296591001242 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 296591001243 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 296591001244 Walker A/P-loop; other site 296591001245 ATP binding site [chemical binding]; other site 296591001246 Q-loop/lid; other site 296591001247 ABC transporter signature motif; other site 296591001248 Walker B; other site 296591001249 D-loop; other site 296591001250 H-loop/switch region; other site 296591001251 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 296591001252 amidase; Provisional; Region: PRK08310 296591001253 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; pfam04115 296591001254 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 296591001255 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 296591001256 C-terminal domain interface [polypeptide binding]; other site 296591001257 GSH binding site (G-site) [chemical binding]; other site 296591001258 dimer interface [polypeptide binding]; other site 296591001259 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 296591001260 N-terminal domain interface [polypeptide binding]; other site 296591001261 dimer interface [polypeptide binding]; other site 296591001262 substrate binding pocket (H-site) [chemical binding]; other site 296591001263 bicyclomycin/multidrug efflux system; Provisional; Region: PRK11102 296591001264 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 296591001265 putative substrate translocation pore; other site 296591001266 Predicted methyltransferases [General function prediction only]; Region: COG0313 296591001267 Ribosomal RNA small subunit methyltransferase I, also known as rRNA (cytidine-2'-O-)-methyltransferase RsmI; Region: RsmI; cd11648 296591001268 putative SAM binding site [chemical binding]; other site 296591001269 putative homodimer interface [polypeptide binding]; other site 296591001270 hypothetical protein; Provisional; Region: PRK14673 296591001271 Phosphoheptose isomerase is a member of the SIS (Sugar ISomerase) superfamily. Phosphoheptose isomerase catalyzes the isomerization of sedoheptulose 7-phosphate into D-glycero-D-mannoheptose 7-phosphate. This is the first step of the biosynthesis of...; Region: SIS_GmhA; cd05006 296591001272 dimer interface [polypeptide binding]; other site 296591001273 active site 296591001274 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 296591001275 BON domain; Region: BON; pfam04972 296591001276 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 296591001277 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 296591001278 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 296591001279 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 296591001280 Walker A motif; other site 296591001281 ATP binding site [chemical binding]; other site 296591001282 Walker B motif; other site 296591001283 Tfp pilus assembly protein, pilus retraction ATPase PilT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilT; COG2805 296591001284 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 296591001285 Walker A motif; other site 296591001286 ATP binding site [chemical binding]; other site 296591001287 Walker B motif; other site 296591001288 Pyridoxal 5-phosphate (PLP)-binding TIM barrel domain of Type III PLP-Dependent Enzymes, Yggs-like proteins; Region: PLPDE_III_Yggs_like; cd06824 296591001289 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 296591001290 catalytic residue [active] 296591001291 Protein of unknown function (DUF3617); Region: DUF3617; pfam12276 296591001292 leucine-responsive transcriptional regulator; Provisional; Region: PRK11169 296591001293 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 296591001294 putative DNA binding site [nucleotide binding]; other site 296591001295 putative Zn2+ binding site [ion binding]; other site 296591001296 AsnC family; Region: AsnC_trans_reg; pfam01037 296591001297 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 296591001298 Winged helix-turn-helix DNA-binding; Region: HTH_24; pfam13412 296591001299 putative DNA binding site [nucleotide binding]; other site 296591001300 putative Zn2+ binding site [ion binding]; other site 296591001301 AsnC family; Region: AsnC_trans_reg; pfam01037 296591001302 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 296591001303 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 296591001304 substrate binding pocket [chemical binding]; other site 296591001305 membrane-bound complex binding site; other site 296591001306 hinge residues; other site 296591001307 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 296591001308 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 296591001309 dimer interface [polypeptide binding]; other site 296591001310 conserved gate region; other site 296591001311 putative PBP binding loops; other site 296591001312 ABC-ATPase subunit interface; other site 296591001313 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 296591001314 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 296591001315 Walker A/P-loop; other site 296591001316 ATP binding site [chemical binding]; other site 296591001317 Q-loop/lid; other site 296591001318 ABC transporter signature motif; other site 296591001319 Walker B; other site 296591001320 D-loop; other site 296591001321 H-loop/switch region; other site 296591001322 Porin subfamily; Region: Porin_2; pfam02530 296591001323 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 296591001324 bifunctional proline dehydrogenase/pyrroline-5-carboxylate dehydrogenase; Reviewed; Region: PRK11904 296591001325 Proline dehydrogenase; Region: Pro_dh; pfam01619 296591001326 Delta(1)-pyrroline-5-carboxylate dehydrogenase, PutA; Region: ALDH_PutA-P5CDH; cd07125 296591001327 Glutamate binding site [chemical binding]; other site 296591001328 NAD binding site [chemical binding]; other site 296591001329 catalytic residues [active] 296591001330 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 296591001331 Walker A motif; other site 296591001332 ATP binding site [chemical binding]; other site 296591001333 Walker B motif; other site 296591001334 arginine finger; other site 296591001335 Domain of unknown function (DUF4143); Region: DUF4143; pfam13635 296591001336 Adenosine specific kinase; Region: Adenosine_kin; pfam04008 296591001337 Protein required for attachment to host cells; Region: Host_attach; pfam10116 296591001338 acetylornithine deacetylase; Provisional; Region: PRK06837 296591001339 M20 Peptidases with similarity to acetylornithine deacetylases and succinyl-diaminopimelate desuccinylases; Region: M20_ArgE_DapE_like2; cd03895 296591001340 metal binding site [ion binding]; metal-binding site 296591001341 dimer interface [polypeptide binding]; other site 296591001342 Cupin domain; Region: Cupin_2; cl17218 296591001343 amidase; Provisional; Region: PRK07487 296591001344 Amidase; Region: Amidase; cl11426 296591001345 4-aminobutyrate aminotransferase and related aminotransferases [Amino acid transport and metabolism]; Region: GabT; COG0160 296591001346 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 296591001347 inhibitor-cofactor binding pocket; inhibition site 296591001348 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591001349 catalytic residue [active] 296591001350 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 296591001351 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK 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)...; Region: APH_ChoK_like; cl17270 296591001352 active site 296591001353 ATP binding site [chemical binding]; other site 296591001354 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 296591001355 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 296591001356 active site 296591001357 Zn binding site [ion binding]; other site 296591001358 Transcriptional regulators [Transcription]; Region: GntR; COG1802 296591001359 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591001360 DNA-binding site [nucleotide binding]; DNA binding site 296591001361 FCD domain; Region: FCD; pfam07729 296591001362 EamA-like transporter family; Region: EamA; pfam00892 296591001363 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 296591001364 allantoate amidohydrolase; Reviewed; Region: PRK12893 296591001365 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 296591001366 active site 296591001367 metal binding site [ion binding]; metal-binding site 296591001368 dimer interface [polypeptide binding]; other site 296591001369 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 296591001370 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 296591001371 active site 296591001372 Zn binding site [ion binding]; other site 296591001373 aminotransferase; Provisional; Region: PRK06105 296591001374 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 296591001375 inhibitor-cofactor binding pocket; inhibition site 296591001376 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591001377 catalytic residue [active] 296591001378 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 296591001379 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 296591001380 putative ligand binding site [chemical binding]; other site 296591001381 NAD binding site [chemical binding]; other site 296591001382 dimerization interface [polypeptide binding]; other site 296591001383 catalytic site [active] 296591001384 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 296591001385 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 296591001386 Walker A/P-loop; other site 296591001387 ATP binding site [chemical binding]; other site 296591001388 Q-loop/lid; other site 296591001389 ABC transporter signature motif; other site 296591001390 Walker B; other site 296591001391 D-loop; other site 296591001392 H-loop/switch region; other site 296591001393 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 296591001394 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 296591001395 Walker A/P-loop; other site 296591001396 ATP binding site [chemical binding]; other site 296591001397 Q-loop/lid; other site 296591001398 ABC transporter signature motif; other site 296591001399 Walker B; other site 296591001400 D-loop; other site 296591001401 H-loop/switch region; other site 296591001402 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 296591001403 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 296591001404 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 296591001405 dimer interface [polypeptide binding]; other site 296591001406 conserved gate region; other site 296591001407 putative PBP binding loops; other site 296591001408 ABC-ATPase subunit interface; other site 296591001409 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 296591001410 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 296591001411 dimer interface [polypeptide binding]; other site 296591001412 conserved gate region; other site 296591001413 putative PBP binding loops; other site 296591001414 ABC-ATPase subunit interface; other site 296591001415 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 296591001416 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_13; cd08517 296591001417 aldolase II superfamily protein; Provisional; Region: PRK07044 296591001418 intersubunit interface [polypeptide binding]; other site 296591001419 active site 296591001420 Zn2+ binding site [ion binding]; other site 296591001421 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 296591001422 GAF domain; Region: GAF; pfam01590 296591001423 PAS fold; Region: PAS_3; pfam08447 296591001424 PAS fold; Region: PAS_4; pfam08448 296591001425 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 296591001426 putative active site [active] 296591001427 heme pocket [chemical binding]; other site 296591001428 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 296591001429 PAS domain; Region: PAS_9; pfam13426 296591001430 putative active site [active] 296591001431 heme pocket [chemical binding]; other site 296591001432 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 296591001433 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 296591001434 metal binding site [ion binding]; metal-binding site 296591001435 active site 296591001436 I-site; other site 296591001437 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 296591001438 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 296591001439 LrgB-like family; Region: LrgB; pfam04172 296591001440 LrgA family; Region: LrgA; pfam03788 296591001441 glycolate oxidase subunit GlcD; Provisional; Region: PRK11230 296591001442 FAD binding domain; Region: FAD_binding_4; pfam01565 296591001443 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591001444 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 296591001445 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 296591001446 active site pocket [active] 296591001447 Transcriptional regulators [Transcription]; Region: PurR; COG1609 296591001448 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 296591001449 DNA binding site [nucleotide binding] 296591001450 domain linker motif; other site 296591001451 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 296591001452 putative dimerization interface [polypeptide binding]; other site 296591001453 putative ligand binding site [chemical binding]; other site 296591001454 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 296591001455 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591001456 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 296591001457 dimerization interface [polypeptide binding]; other site 296591001458 substrate binding pocket [chemical binding]; other site 296591001459 formyltetrahydrofolate deformylase; Reviewed; Region: purU; PRK06027 296591001460 N-terminal ACT domain of formyltetrahydrofolate deformylase (F4HF-DF; formyltetrahydrofolate hydrolase); Region: ACT_F4HF-DF; cd04875 296591001461 Formyltetrahydrofolate deformylase (Formyl-FH4 hydrolase), C-terminal hydrolase domain; Region: FMT_core_Formyl-FH4-Hydrolase_C; cd08648 296591001462 putative active site [active] 296591001463 putative substrate binding site [chemical binding]; other site 296591001464 putative cosubstrate binding site; other site 296591001465 catalytic site [active] 296591001466 Protein of unknown function, DUF399; Region: DUF399; pfam04187 296591001467 Putative ammonia monooxygenase [General function prediction only]; Region: AbrB; COG3180 296591001468 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 296591001469 membrane protein AbrB duplication; Region: Gneg_AbrB_dup; TIGR03082 296591001470 Protein of unknown function (DUF3567); Region: DUF3567; pfam12091 296591001471 Protein of unknown function (DUF3108); Region: DUF3108; pfam11306 296591001472 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 296591001473 Transcriptional regulator [Transcription]; Region: IclR; COG1414 296591001474 Bacterial transcriptional regulator; Region: IclR; pfam01614 296591001475 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 296591001476 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 296591001477 Multiple antibiotic transporter [Intracellular trafficking and secretion]; Region: MarC; COG2095 296591001478 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 296591001479 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_18; cd08357 296591001480 putative metal binding site [ion binding]; other site 296591001481 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4398 296591001482 FIST N domain; Region: FIST; smart00897 296591001483 FIST C domain; Region: FIST_C; pfam10442 296591001484 Protein of unknown function (DUF497); Region: DUF497; pfam04365 296591001485 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 296591001486 non-specific DNA binding site [nucleotide binding]; other site 296591001487 salt bridge; other site 296591001488 sequence-specific DNA binding site [nucleotide binding]; other site 296591001489 Major Facilitator Superfamily; Region: MFS_1; pfam07690 296591001490 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 296591001491 putative substrate translocation pore; other site 296591001492 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 296591001493 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 296591001494 putative acyl-acceptor binding pocket; other site 296591001495 Predicted membrane protein [Function unknown]; Region: COG4682 296591001496 yiaA/B two helix domain; Region: YiaAB; cl01759 296591001497 yiaA/B two helix domain; Region: YiaAB; cl01759 296591001498 Uncharacterized protein conserved in bacteria (DUF2145); Region: DUF2145; pfam09916 296591001499 Double zinc ribbon; Region: DZR; pfam12773 296591001500 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 296591001501 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 296591001502 active site 296591001503 catalytic tetrad [active] 296591001504 4-amino-4-deoxy-L-arabinose transferase and related glycosyltransferases of PMT family [Cell envelope biogenesis, outer membrane]; Region: ArnT; COG1807 296591001505 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; cl17364 296591001506 Predicted membrane protein [Function unknown]; Region: COG2246 296591001507 GtrA-like protein; Region: GtrA; pfam04138 296591001508 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 296591001509 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 296591001510 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 296591001511 putative active site [active] 296591001512 queuine tRNA-ribosyltransferase; Provisional; Region: tgt; PRK00112 296591001513 Queuine/archaeosine tRNA-ribosyltransferase [Translation, ribosomal structure and biogenesis]; Region: Tgt; COG0343 296591001514 Queuosine biosynthesis protein; Region: Queuosine_synth; pfam02547 296591001515 S-adenosylmethionine:tRNA ribosyltransferase-isomerase; Region: queA; TIGR00113 296591001516 ATP-dependent DNA helicase RecG; Provisional; Region: PRK10917 296591001517 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 296591001518 generic binding surface II; other site 296591001519 ssDNA binding site; other site 296591001520 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 296591001521 ATP binding site [chemical binding]; other site 296591001522 putative Mg++ binding site [ion binding]; other site 296591001523 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 296591001524 nucleotide binding region [chemical binding]; other site 296591001525 ATP-binding site [chemical binding]; other site 296591001526 Protein of unknown function (DUF1044); Region: DUF1044; pfam06296 296591001527 Predicted transcriptional regulator [Transcription]; Region: COG2944 296591001528 DNA-binding transcriptional regulator OxyR; Provisional; Region: PRK11151 296591001529 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591001530 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 296591001531 dimerization interface [polypeptide binding]; other site 296591001532 Dyp-type peroxidase family; Region: Dyp_perox_fam; TIGR01413 296591001533 4-hydroxybenzoate octaprenyltransferase; Reviewed; Region: ubiA; PRK12848 296591001534 UbiA prenyltransferase family; Region: UbiA; pfam01040 296591001535 pyrroline-5-carboxylate reductase; Reviewed; Region: PRK11880 296591001536 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; cl17232 296591001537 glycerol kinase; Provisional; Region: glpK; PRK00047 296591001538 Escherichia coli glycerol kinase-like proteins; belongs to the FGGY family of carbohydrate kinases; Region: FGGY_EcGK_like; cd07786 296591001539 N- and C-terminal domain interface [polypeptide binding]; other site 296591001540 active site 296591001541 MgATP binding site [chemical binding]; other site 296591001542 catalytic site [active] 296591001543 metal binding site [ion binding]; metal-binding site 296591001544 glycerol binding site [chemical binding]; other site 296591001545 homotetramer interface [polypeptide binding]; other site 296591001546 homodimer interface [polypeptide binding]; other site 296591001547 FBP binding site [chemical binding]; other site 296591001548 protein IIAGlc interface [polypeptide binding]; other site 296591001549 Transcriptional regulators of sugar metabolism [Transcription / Carbohydrate transport and metabolism]; Region: GlpR; COG1349 296591001550 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 296591001551 putative DNA binding site [nucleotide binding]; other site 296591001552 putative Zn2+ binding site [ion binding]; other site 296591001553 DeoR C terminal sensor domain; Region: DeoRC; pfam00455 296591001554 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 296591001555 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 296591001556 Walker A/P-loop; other site 296591001557 ATP binding site [chemical binding]; other site 296591001558 Q-loop/lid; other site 296591001559 ABC transporter signature motif; other site 296591001560 Walker B; other site 296591001561 D-loop; other site 296591001562 H-loop/switch region; other site 296591001563 TOBE domain; Region: TOBE_2; pfam08402 296591001564 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 296591001565 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 296591001566 Walker A/P-loop; other site 296591001567 ATP binding site [chemical binding]; other site 296591001568 Q-loop/lid; other site 296591001569 ABC transporter signature motif; other site 296591001570 Walker B; other site 296591001571 D-loop; other site 296591001572 H-loop/switch region; other site 296591001573 TOBE domain; Region: TOBE; cl01440 296591001574 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 296591001575 putative PBP binding loops; other site 296591001576 dimer interface [polypeptide binding]; other site 296591001577 ABC-ATPase subunit interface; other site 296591001578 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 296591001579 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 296591001580 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 296591001581 dimer interface [polypeptide binding]; other site 296591001582 conserved gate region; other site 296591001583 putative PBP binding loops; other site 296591001584 ABC-ATPase subunit interface; other site 296591001585 Predicted small integral membrane protein (DUF2160); Region: DUF2160; pfam09928 296591001586 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 296591001587 Glycerol-3-phosphate dehydrogenase [Energy production and conversion]; Region: GlpA; COG0578 296591001588 50S ribosomal protein L14; Validated; Region: rplN; PRK05483 296591001589 50S ribosomal protein L24; Reviewed; Region: rplX; PRK00004 296591001590 KOW motif of Ribosomal Protein L26; Region: KOW_RPL26; cd06089 296591001591 RNA binding site [nucleotide binding]; other site 296591001592 50S ribosomal protein L5; Validated; Region: rplE; PRK00010 296591001593 Ribosomal protein L5; Region: Ribosomal_L5; pfam00281 296591001594 ribosomal L5P family C-terminus; Region: Ribosomal_L5_C; pfam00673 296591001595 30S ribosomal protein S14; Reviewed; Region: rpsN; PRK08881 296591001596 30S ribosomal protein S8; Validated; Region: rpsH; PRK00136 296591001597 50S ribosomal protein L6; Validated; Region: rplF; PRK05498 296591001598 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 296591001599 Ribosomal protein L6; Region: Ribosomal_L6; pfam00347 296591001600 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 296591001601 5S rRNA interface [nucleotide binding]; other site 296591001602 23S rRNA interface [nucleotide binding]; other site 296591001603 L5 interface [polypeptide binding]; other site 296591001604 30S ribosomal protein S5; Validated; Region: rpsE; PRK00550 296591001605 Ribosomal protein S5, N-terminal domain; Region: Ribosomal_S5; pfam00333 296591001606 Ribosomal protein S5, C-terminal domain; Region: Ribosomal_S5_C; pfam03719 296591001607 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 296591001608 23S rRNA binding site [nucleotide binding]; other site 296591001609 50S ribosomal protein L15; Reviewed; Region: rplO; PRK05592 296591001610 preprotein translocase subunit SecY; Reviewed; Region: secY; PRK09204 296591001611 SecY translocase; Region: SecY; pfam00344 296591001612 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 296591001613 rRNA binding site [nucleotide binding]; other site 296591001614 predicted 30S ribosome binding site; other site 296591001615 50S ribosomal protein L36; Reviewed; Region: rpmJ; PRK00465 296591001616 30S ribosomal protein S13; Validated; Region: rpsM; PRK05179 296591001617 30S ribosomal protein S13; Region: bact_S13; TIGR03631 296591001618 30S ribosomal protein S11; Validated; Region: PRK05309 296591001619 30S ribosomal protein S4; Validated; Region: rpsD; PRK05327 296591001620 Ribosomal protein S4/S9 N-terminal domain; Region: Ribosomal_S4; pfam00163 296591001621 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 296591001622 RNA binding surface [nucleotide binding]; other site 296591001623 DNA-directed RNA polymerase subunit alpha; Provisional; Region: PRK05182 296591001624 N-terminal domain of the Alpha subunit of Bacterial RNA polymerase; Region: RNAP_alpha_NTD; cd06928 296591001625 alphaNTD homodimer interface [polypeptide binding]; other site 296591001626 alphaNTD - beta interaction site [polypeptide binding]; other site 296591001627 alphaNTD - beta' interaction site [polypeptide binding]; other site 296591001628 Bacterial RNA polymerase, alpha chain C terminal domain; Region: RNA_pol_A_CTD; pfam03118 296591001629 50S ribosomal protein L17; Validated; Region: rplQ; PRK05591 296591001630 Protein of unknown function (DUF3348); Region: DUF3348; pfam11828 296591001631 Domain of unknown function (DUF802); Region: DUF802; pfam05650 296591001632 hypothetical protein; Provisional; Region: PRK09040 296591001633 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 296591001634 ligand binding site [chemical binding]; other site 296591001635 Protein of unknown function (DUF2894); Region: DUF2894; pfam11445 296591001636 Dodecin; Region: Dodecin; pfam07311 296591001637 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 296591001638 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 296591001639 active site 1 [active] 296591001640 dimer interface [polypeptide binding]; other site 296591001641 hexamer interface [polypeptide binding]; other site 296591001642 active site 2 [active] 296591001643 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591001644 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 296591001645 dimerization interface [polypeptide binding]; other site 296591001646 EamA-like transporter family; Region: EamA; pfam00892 296591001647 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 296591001648 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 296591001649 classical (c) SDRs; Region: SDR_c; cd05233 296591001650 short chain dehydrogenase; Provisional; Region: PRK06172 296591001651 NAD(P) binding site [chemical binding]; other site 296591001652 active site 296591001653 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591001654 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591001655 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 296591001656 putative effector binding pocket; other site 296591001657 dimerization interface [polypeptide binding]; other site 296591001658 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591001659 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591001660 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_2; cd08471 296591001661 putative effector binding pocket; other site 296591001662 putative dimerization interface [polypeptide binding]; other site 296591001663 Uncharacterized conserved protein [Function unknown]; Region: COG2128 296591001664 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 296591001665 haloalkane dehalogenase; Provisional; Region: PRK03592 296591001666 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 296591001667 Domain of unknown function (DUF336); Region: DUF336; cl01249 296591001668 Protein of unknown function (DUF2798); Region: DUF2798; pfam11391 296591001669 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 296591001670 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 296591001671 active site 296591001672 motif I; other site 296591001673 motif II; other site 296591001674 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 296591001675 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 296591001676 Na binding site [ion binding]; other site 296591001677 Protein of unknown function, DUF485; Region: DUF485; pfam04341 296591001678 PAS domain S-box; Region: sensory_box; TIGR00229 296591001679 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 296591001680 putative active site [active] 296591001681 heme pocket [chemical binding]; other site 296591001682 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 296591001683 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 296591001684 Walker A motif; other site 296591001685 ATP binding site [chemical binding]; other site 296591001686 Walker B motif; other site 296591001687 arginine finger; other site 296591001688 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 296591001689 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 296591001690 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 296591001691 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 296591001692 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 296591001693 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 296591001694 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 296591001695 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 296591001696 metal binding site [ion binding]; metal-binding site 296591001697 substrate binding pocket [chemical binding]; other site 296591001698 Cytochrome c biogenesis protein [Posttranslational modification, protein turnover, chaperones]; Region: CcdA; COG0785 296591001699 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 296591001700 TlpA-like family, DipZ-like subfamily; composed uncharacterized proteins containing a TlpA-like TRX domain. Some members show domain architectures similar to that of E. coli DipZ protein (also known as DsbD). The only eukaryotic members of the TlpA...; Region: TlpA_like_DipZ_like; cd03012 296591001701 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 296591001702 catalytic residues [active] 296591001703 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 296591001704 bacterial subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. This domain is found in a variety of oxidoreductases. Common features of all known members of this family, like sulfite oxidase and nitrite reductase, are that they...; Region: bact_SO_family_Moco; cd02108 296591001705 Moco binding site; other site 296591001706 metal coordination site [ion binding]; other site 296591001707 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 296591001708 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 296591001709 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 296591001710 active site 296591001711 phosphorylation site [posttranslational modification] 296591001712 intermolecular recognition site; other site 296591001713 dimerization interface [polypeptide binding]; other site 296591001714 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 296591001715 DNA binding site [nucleotide binding] 296591001716 heavy metal sensor kinase; Region: cztS_silS_copS; TIGR01386 296591001717 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 296591001718 dimer interface [polypeptide binding]; other site 296591001719 phosphorylation site [posttranslational modification] 296591001720 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 296591001721 ATP binding site [chemical binding]; other site 296591001722 Mg2+ binding site [ion binding]; other site 296591001723 G-X-G motif; other site 296591001724 Predicted transcriptional regulators [Transcription]; Region: COG1733 296591001725 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 296591001726 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 296591001727 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 296591001728 putative substrate translocation pore; other site 296591001729 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 296591001730 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 296591001731 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 296591001732 homodimer interface [polypeptide binding]; other site 296591001733 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591001734 catalytic residue [active] 296591001735 Transcriptional regulators [Transcription]; Region: GntR; COG1802 296591001736 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591001737 DNA-binding site [nucleotide binding]; DNA binding site 296591001738 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 296591001739 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 296591001740 dihydropyrimidinase; Provisional; Region: PRK13404 296591001741 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 296591001742 tetramer interface [polypeptide binding]; other site 296591001743 active site 296591001744 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 296591001745 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 296591001746 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 296591001747 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 296591001748 DctM-like transporters; Region: DctM; pfam06808 296591001749 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 296591001750 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 296591001751 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 296591001752 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 296591001753 DctM-like transporters; Region: DctM; pfam06808 296591001754 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 296591001755 Amidase; Region: Amidase; cl11426 296591001756 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591001757 Response regulator receiver domain; Region: Response_reg; pfam00072 296591001758 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 296591001759 active site 296591001760 phosphorylation site [posttranslational modification] 296591001761 intermolecular recognition site; other site 296591001762 dimerization interface [polypeptide binding]; other site 296591001763 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 296591001764 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 296591001765 DNA binding residues [nucleotide binding] 296591001766 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 296591001767 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 296591001768 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 296591001769 dimer interface [polypeptide binding]; other site 296591001770 phosphorylation site [posttranslational modification] 296591001771 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 296591001772 ATP binding site [chemical binding]; other site 296591001773 Mg2+ binding site [ion binding]; other site 296591001774 G-X-G motif; other site 296591001775 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 296591001776 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 296591001777 active site 296591001778 phosphorylation site [posttranslational modification] 296591001779 intermolecular recognition site; other site 296591001780 dimerization interface [polypeptide binding]; other site 296591001781 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 296591001782 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 296591001783 putative ligand binding site [chemical binding]; other site 296591001784 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 296591001785 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 296591001786 TM-ABC transporter signature motif; other site 296591001787 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 296591001788 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 296591001789 TM-ABC transporter signature motif; other site 296591001790 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 296591001791 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 296591001792 Walker A/P-loop; other site 296591001793 ATP binding site [chemical binding]; other site 296591001794 Q-loop/lid; other site 296591001795 ABC transporter signature motif; other site 296591001796 Walker B; other site 296591001797 D-loop; other site 296591001798 H-loop/switch region; other site 296591001799 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 296591001800 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 296591001801 Walker A/P-loop; other site 296591001802 ATP binding site [chemical binding]; other site 296591001803 Q-loop/lid; other site 296591001804 ABC transporter signature motif; other site 296591001805 Walker B; other site 296591001806 D-loop; other site 296591001807 H-loop/switch region; other site 296591001808 Acetamidase/Formamidase family; Region: FmdA_AmdA; pfam03069 296591001809 putative regulatory protein, FmdB family; Region: CxxC_CxxC_SSSS; TIGR02605 296591001810 acylamide amidohydrolase; Provisional; Region: amiE; PRK13286 296591001811 aliphatic amidases (class 2 nitrilases); Region: aliphatic_amidase; cd07565 296591001812 multimer interface [polypeptide binding]; other site 296591001813 active site 296591001814 catalytic triad [active] 296591001815 dimer interface [polypeptide binding]; other site 296591001816 Xanthine and CO dehydrogenases maturation factor, XdhC/CoxF family [Posttranslational modification, protein turnover, chaperones]; Region: XdhC; COG1975 296591001817 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 296591001818 XdhC Rossmann domain; Region: XdhC_C; pfam13478 296591001819 Carbon monoxide dehydrogenase subunit G (CoxG); Region: CoxG; cd05018 296591001820 putative hydrophobic ligand binding site [chemical binding]; other site 296591001821 Protein containing von Willebrand factor type A (vWA) domain [General function prediction only]; Region: CoxE; COG3552 296591001822 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cd00198 296591001823 metal ion-dependent adhesion site (MIDAS); other site 296591001824 MoxR-like ATPases [General function prediction only]; Region: COG0714 296591001825 Aerobic-type carbon monoxide dehydrogenase, middle subunit CoxM/CutM homologs [Energy production and conversion]; Region: CoxM; COG1319 296591001826 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; smart01092 296591001827 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 296591001828 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 296591001829 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 296591001830 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 296591001831 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 296591001832 catalytic loop [active] 296591001833 iron binding site [ion binding]; other site 296591001834 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 296591001835 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591001836 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 296591001837 MmgE/PrpD family; Region: MmgE_PrpD; cl00912 296591001838 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 296591001839 CoA-transferase family III; Region: CoA_transf_3; pfam02515 296591001840 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 296591001841 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 296591001842 active site 296591001843 Uncharacterized conserved protein [Function unknown]; Region: COG3777 296591001844 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 296591001845 SAV4209 is a Streptomyces avermitilis protein with a hot dog fold that is similar to those of (R)-specific enoyl-CoA hydratase, the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. The alpha- and...; Region: SAV4209; cd03455 296591001846 putative active site [active] 296591001847 putative catalytic site [active] 296591001848 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591001849 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591001850 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591001851 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 296591001852 putative dimerization interface [polypeptide binding]; other site 296591001853 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 296591001854 homotrimer interaction site [polypeptide binding]; other site 296591001855 putative active site [active] 296591001856 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 296591001857 active site 296591001858 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 296591001859 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 296591001860 acyl-activating enzyme (AAE) consensus motif; other site 296591001861 AMP binding site [chemical binding]; other site 296591001862 active site 296591001863 CoA binding site [chemical binding]; other site 296591001864 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 296591001865 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 296591001866 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 296591001867 active site 296591001868 enoyl-CoA hydratase; Provisional; Region: PRK06688 296591001869 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 296591001870 substrate binding site [chemical binding]; other site 296591001871 oxyanion hole (OAH) forming residues; other site 296591001872 trimer interface [polypeptide binding]; other site 296591001873 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 296591001874 MarR family; Region: MarR; pfam01047 296591001875 salicylyl-CoA 5-hydroxylase; Reviewed; Region: PRK08255 296591001876 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 296591001877 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 296591001878 active site 296591001879 FMN binding site [chemical binding]; other site 296591001880 substrate binding site [chemical binding]; other site 296591001881 homotetramer interface [polypeptide binding]; other site 296591001882 catalytic residue [active] 296591001883 Biofilm formation and stress response factor; Region: BsmA; pfam10014 296591001884 Domain of unknown function (DUF1840); Region: DUF1840; pfam08895 296591001885 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591001886 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591001887 Coenzyme F390 synthetase [Coenzyme metabolism]; Region: PaaK; COG1541 296591001888 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 296591001889 acyl-activating enzyme (AAE) consensus motif; other site 296591001890 active site 296591001891 AMP binding site [chemical binding]; other site 296591001892 CoA binding site [chemical binding]; other site 296591001893 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 296591001894 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 296591001895 Walker A/P-loop; other site 296591001896 ATP binding site [chemical binding]; other site 296591001897 Q-loop/lid; other site 296591001898 ABC transporter signature motif; other site 296591001899 Walker B; other site 296591001900 D-loop; other site 296591001901 H-loop/switch region; other site 296591001902 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_1; cd06334 296591001903 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 296591001904 putative ligand binding site [chemical binding]; other site 296591001905 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 296591001906 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 296591001907 TM-ABC transporter signature motif; other site 296591001908 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 296591001909 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 296591001910 TM-ABC transporter signature motif; other site 296591001911 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 296591001912 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 296591001913 Walker A/P-loop; other site 296591001914 ATP binding site [chemical binding]; other site 296591001915 Q-loop/lid; other site 296591001916 ABC transporter signature motif; other site 296591001917 Walker B; other site 296591001918 D-loop; other site 296591001919 H-loop/switch region; other site 296591001920 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 296591001921 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 296591001922 acyl-activating enzyme (AAE) consensus motif; other site 296591001923 putative AMP binding site [chemical binding]; other site 296591001924 putative active site [active] 296591001925 putative CoA binding site [chemical binding]; other site 296591001926 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 296591001927 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 296591001928 ligand binding site [chemical binding]; other site 296591001929 flexible hinge region; other site 296591001930 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 296591001931 non-specific DNA interactions [nucleotide binding]; other site 296591001932 DNA binding site [nucleotide binding] 296591001933 sequence specific DNA binding site [nucleotide binding]; other site 296591001934 putative cAMP binding site [chemical binding]; other site 296591001935 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 296591001936 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 296591001937 RNA binding surface [nucleotide binding]; other site 296591001938 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 296591001939 active site 296591001940 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 296591001941 Response regulator receiver domain; Region: Response_reg; pfam00072 296591001942 active site 296591001943 phosphorylation site [posttranslational modification] 296591001944 intermolecular recognition site; other site 296591001945 dimerization interface [polypeptide binding]; other site 296591001946 Spore Coat Protein U domain; Region: SCPU; pfam05229 296591001947 P pilus assembly protein, porin PapC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimD; COG3188 296591001948 Type VII secretion system (T7SS), usher protein; Region: Usher; pfam00577 296591001949 PapC C-terminal domain; Region: PapC_C; pfam13953 296591001950 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 296591001951 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 296591001952 heat shock protein 90; Provisional; Region: PRK05218 296591001953 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 296591001954 ATP binding site [chemical binding]; other site 296591001955 Mg2+ binding site [ion binding]; other site 296591001956 G-X-G motif; other site 296591001957 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 296591001958 HipA N-terminal domain; Region: Couple_hipA; pfam13657 296591001959 Toxin module HipA, protein kinase of phosphatidylinositol 3/4-kinase superfamily [General function prediction only]; Region: HipA; COG3550 296591001960 HipA-like N-terminal domain; Region: HipA_N; pfam07805 296591001961 HipA-like C-terminal domain; Region: HipA_C; pfam07804 296591001962 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 296591001963 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 296591001964 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591001965 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591001966 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 296591001967 serine/threonine protein kinase; Provisional; Region: PRK11768 296591001968 peroxiredoxin, Ohr subfamily; Region: organ_hyd_perox; TIGR03561 296591001969 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 296591001970 MarR family; Region: MarR; pfam01047 296591001971 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 296591001972 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 296591001973 Methyltransferase domain; Region: Methyltransf_32; pfam13679 296591001974 Methyltransferase domain; Region: Methyltransf_31; pfam13847 296591001975 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 296591001976 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591001977 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 296591001978 dimerization interface [polypeptide binding]; other site 296591001979 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 296591001980 heterodimer interface [polypeptide binding]; other site 296591001981 multimer interface [polypeptide binding]; other site 296591001982 protocatechuate 3,4-dioxygenase, beta subunit; Region: protocat_beta; TIGR02422 296591001983 active site 296591001984 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 296591001985 active site 296591001986 Hemerythrin-like domain of FBXL5-like proteins; Region: Hr_FBXL5; cd12109 296591001987 Fe binding site [ion binding]; other site 296591001988 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 296591001989 GAF domain; Region: GAF; pfam01590 296591001990 ABC-2 type transporter; Region: ABC2_membrane; cl17235 296591001991 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 296591001992 nodulation ABC transporter NodI; Provisional; Region: PRK13537 296591001993 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 296591001994 Walker A/P-loop; other site 296591001995 ATP binding site [chemical binding]; other site 296591001996 Q-loop/lid; other site 296591001997 ABC transporter signature motif; other site 296591001998 Walker B; other site 296591001999 D-loop; other site 296591002000 H-loop/switch region; other site 296591002001 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 296591002002 FAD binding pocket [chemical binding]; other site 296591002003 FAD binding motif [chemical binding]; other site 296591002004 phosphate binding motif [ion binding]; other site 296591002005 NAD binding pocket [chemical binding]; other site 296591002006 phosphoribosylglycinamide formyltransferase 2; Validated; Region: purT; PRK09288 296591002007 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 296591002008 ATP-grasp domain; Region: ATP-grasp; pfam02222 296591002009 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 296591002010 Mechanosensitive ion channel; Region: MS_channel; pfam00924 296591002011 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 296591002012 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591002013 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 296591002014 putative dimerization interface [polypeptide binding]; other site 296591002015 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591002016 tricarballylate dehydrogenase; Validated; Region: PRK08274 296591002017 tricarballylate utilization protein B; Provisional; Region: PRK15033 296591002018 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 296591002019 Major Facilitator Superfamily; Region: MFS_1; pfam07690 296591002020 AMP nucleosidase; Provisional; Region: PRK08292 296591002021 Bacterial AMP nucleoside phosphorylase N-terminus; Region: AMNp_N; pfam10423 296591002022 Nucleoside phosphorylase [Nucleotide transport and metabolism]; Region: Pfs; COG0775 296591002023 glutathione reductase; Validated; Region: PRK06116 296591002024 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 296591002025 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 296591002026 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 296591002027 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591002028 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591002029 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_2; cd08471 296591002030 putative effector binding pocket; other site 296591002031 putative dimerization interface [polypeptide binding]; other site 296591002032 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 296591002033 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 296591002034 putative C-terminal domain interface [polypeptide binding]; other site 296591002035 putative GSH binding site (G-site) [chemical binding]; other site 296591002036 putative dimer interface [polypeptide binding]; other site 296591002037 C-terminal, alpha helical domain of an unknown subfamily 7 of Glutathione S-transferases; Region: GST_C_7; cd03206 296591002038 putative N-terminal domain interface [polypeptide binding]; other site 296591002039 putative dimer interface [polypeptide binding]; other site 296591002040 putative substrate binding pocket (H-site) [chemical binding]; other site 296591002041 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 296591002042 Pyridoxine 5'-phosphate (PNP) oxidase-like proteins; Region: PNPOx_like; cl00381 296591002043 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 296591002044 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591002045 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 296591002046 dimerization interface [polypeptide binding]; other site 296591002047 Protein of unknown function (DUF2917); Region: DUF2917; pfam11142 296591002048 enoyl-CoA hydratase; Provisional; Region: PRK05980 296591002049 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 296591002050 substrate binding site [chemical binding]; other site 296591002051 oxyanion hole (OAH) forming residues; other site 296591002052 trimer interface [polypeptide binding]; other site 296591002053 ATP-dependent RNA helicase DbpA; Provisional; Region: PRK11776 296591002054 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 296591002055 ATP binding site [chemical binding]; other site 296591002056 Mg++ binding site [ion binding]; other site 296591002057 motif III; other site 296591002058 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 296591002059 nucleotide binding region [chemical binding]; other site 296591002060 ATP-binding site [chemical binding]; other site 296591002061 RNA recognition motif in Escherichia coli RNA helicase dbpA and similar proteins; Region: RRM_EcDbpA_like; cd12501 296591002062 putative RNA binding site [nucleotide binding]; other site 296591002063 lytic murein transglycosylase; Provisional; Region: PRK11619 296591002064 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 296591002065 N-acetyl-D-glucosamine binding site [chemical binding]; other site 296591002066 catalytic residue [active] 296591002067 5-formyltetrahydrofolate cyclo-ligase [Coenzyme metabolism]; Region: COG0212; cl00360 296591002068 5-formyltetrahydrofolate cyclo-ligase family; Region: 5-FTHF_cyc-lig; pfam01812 296591002069 Transposase; Region: DEDD_Tnp_IS110; pfam01548 296591002070 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 296591002071 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 296591002072 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 296591002073 homotrimer interaction site [polypeptide binding]; other site 296591002074 putative active site [active] 296591002075 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 296591002076 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_16; cd08502 296591002077 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 296591002078 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 296591002079 dimer interface [polypeptide binding]; other site 296591002080 conserved gate region; other site 296591002081 putative PBP binding loops; other site 296591002082 ABC-ATPase subunit interface; other site 296591002083 nickel ABC transporter, permease subunit NikC; Region: nickel_nikC; TIGR02790 296591002084 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 296591002085 dimer interface [polypeptide binding]; other site 296591002086 conserved gate region; other site 296591002087 putative PBP binding loops; other site 296591002088 ABC-ATPase subunit interface; other site 296591002089 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 296591002090 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 296591002091 Walker A/P-loop; other site 296591002092 ATP binding site [chemical binding]; other site 296591002093 Q-loop/lid; other site 296591002094 ABC transporter signature motif; other site 296591002095 Walker B; other site 296591002096 D-loop; other site 296591002097 H-loop/switch region; other site 296591002098 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 296591002099 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 296591002100 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 296591002101 Walker A/P-loop; other site 296591002102 ATP binding site [chemical binding]; other site 296591002103 Q-loop/lid; other site 296591002104 ABC transporter signature motif; other site 296591002105 Walker B; other site 296591002106 D-loop; other site 296591002107 H-loop/switch region; other site 296591002108 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 296591002109 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 296591002110 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Bacterial Cryptic D-Serine Dehydratase; Region: PLPDE_III_cryptic_DSD; cd06818 296591002111 dimer interface [polypeptide binding]; other site 296591002112 active site 296591002113 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 296591002114 substrate binding site [chemical binding]; other site 296591002115 catalytic residue [active] 296591002116 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 296591002117 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 296591002118 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 296591002119 putative active site [active] 296591002120 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 296591002121 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 296591002122 active site 296591002123 putative substrate binding pocket [chemical binding]; other site 296591002124 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591002125 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 296591002126 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 296591002127 dimerization interface [polypeptide binding]; other site 296591002128 substrate binding pocket [chemical binding]; other site 296591002129 TfoX N-terminal domain; Region: TfoX_N; pfam04993 296591002130 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 296591002131 Sensors of blue-light using FAD; Region: BLUF; smart01034 296591002132 N-acetylglucosamine-1-phosphate uridyltransferase (contains nucleotidyltransferase and I-patch acetyltransferase domains) [Cell envelope biogenesis, outer membrane]; Region: GlmU; COG1207 296591002133 N-terminal domain of bacterial GlmU; Region: GT2_GlmU_N_bac; cd02540 296591002134 Substrate binding site; other site 296591002135 Mg++ binding site; other site 296591002136 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 296591002137 active site 296591002138 substrate binding site [chemical binding]; other site 296591002139 CoA binding site [chemical binding]; other site 296591002140 EamA-like transporter family; Region: EamA; pfam00892 296591002141 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591002142 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591002143 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 296591002144 dimerization interface [polypeptide binding]; other site 296591002145 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 296591002146 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 296591002147 putative DNA binding site [nucleotide binding]; other site 296591002148 putative Zn2+ binding site [ion binding]; other site 296591002149 AsnC family; Region: AsnC_trans_reg; pfam01037 296591002150 glucosamine--fructose-6-phosphate aminotransferase; Reviewed; Region: PRK00331 296591002151 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 296591002152 glutaminase active site [active] 296591002153 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 296591002154 dimer interface [polypeptide binding]; other site 296591002155 active site 296591002156 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 296591002157 dimer interface [polypeptide binding]; other site 296591002158 active site 296591002159 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 296591002160 catalase/hydroperoxidase HPI(I); Provisional; Region: PRK15061 296591002161 N-terminal catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_1; cd00649 296591002162 dimer interface [polypeptide binding]; other site 296591002163 active site 296591002164 heme binding site [chemical binding]; other site 296591002165 C-terminal non-catalytic domain of catalase-peroxidases; Region: catalase_peroxidase_2; cd08200 296591002166 hypothetical protein; Provisional; Region: PRK07236 296591002167 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 296591002168 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 296591002169 ligand binding site [chemical binding]; other site 296591002170 flexible hinge region; other site 296591002171 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 296591002172 putative switch regulator; other site 296591002173 non-specific DNA interactions [nucleotide binding]; other site 296591002174 DNA binding site [nucleotide binding] 296591002175 sequence specific DNA binding site [nucleotide binding]; other site 296591002176 putative cAMP binding site [chemical binding]; other site 296591002177 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 296591002178 putative FMN binding site [chemical binding]; other site 296591002179 acyl-CoA synthetase; Validated; Region: PRK08162 296591002180 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles and Arabidopsis; Region: ttLC_FACS_AEE21_like; cd12118 296591002181 acyl-activating enzyme (AAE) consensus motif; other site 296591002182 putative active site [active] 296591002183 AMP binding site [chemical binding]; other site 296591002184 putative CoA binding site [chemical binding]; other site 296591002185 Predicted membrane protein [Function unknown]; Region: COG2259 296591002186 Putative regulatory protein; Region: CxxC_CXXC_SSSS; smart00834 296591002187 phenylhydantoinase; Validated; Region: PRK08323 296591002188 D-hydantoinases (D-HYD) also called dihydropyrimidases (DHPase) and related proteins; DHPases are a family of enzymes that catalyze the reversible hydrolytic ring opening of the amide bond in five- or six-membered cyclic diamides, like dihydropyrimidine...; Region: D-HYD; cd01314 296591002189 tetramer interface [polypeptide binding]; other site 296591002190 active site 296591002191 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 296591002192 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 296591002193 inhibitor site; inhibition site 296591002194 active site 296591002195 dimer interface [polypeptide binding]; other site 296591002196 catalytic residue [active] 296591002197 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 296591002198 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 296591002199 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 296591002200 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 296591002201 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 296591002202 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 296591002203 substrate binding pocket [chemical binding]; other site 296591002204 membrane-bound complex binding site; other site 296591002205 hinge residues; other site 296591002206 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 296591002207 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 296591002208 dimer interface [polypeptide binding]; other site 296591002209 conserved gate region; other site 296591002210 putative PBP binding loops; other site 296591002211 ABC-ATPase subunit interface; other site 296591002212 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 296591002213 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 296591002214 putative PBP binding loops; other site 296591002215 dimer interface [polypeptide binding]; other site 296591002216 ABC-ATPase subunit interface; other site 296591002217 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 296591002218 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 296591002219 Walker A/P-loop; other site 296591002220 ATP binding site [chemical binding]; other site 296591002221 Q-loop/lid; other site 296591002222 ABC transporter signature motif; other site 296591002223 Walker B; other site 296591002224 D-loop; other site 296591002225 H-loop/switch region; other site 296591002226 Transcriptional regulators [Transcription]; Region: GntR; COG1802 296591002227 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 296591002228 hypothetical protein; Provisional; Region: PRK09256 296591002229 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481 296591002230 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 296591002231 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 296591002232 DNA binding site [nucleotide binding] 296591002233 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: RbsB; COG1879 296591002234 Periplasmic sugar-binding domain of uncharacterized transport systems; Region: PBP1_uncharacterized_sugar_binding; cd06307 296591002235 putative ligand binding site [chemical binding]; other site 296591002236 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 296591002237 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 296591002238 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 296591002239 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 296591002240 dimer interface [polypeptide binding]; other site 296591002241 conserved gate region; other site 296591002242 putative PBP binding loops; other site 296591002243 ABC-ATPase subunit interface; other site 296591002244 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 296591002245 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 296591002246 dimer interface [polypeptide binding]; other site 296591002247 conserved gate region; other site 296591002248 putative PBP binding loops; other site 296591002249 ABC-ATPase subunit interface; other site 296591002250 alpha-ketoglutarate decarboxylase; Reviewed; Region: kgd; PRK12270 296591002251 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 296591002252 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 296591002253 Walker A/P-loop; other site 296591002254 ATP binding site [chemical binding]; other site 296591002255 Q-loop/lid; other site 296591002256 ABC transporter signature motif; other site 296591002257 Walker B; other site 296591002258 D-loop; other site 296591002259 H-loop/switch region; other site 296591002260 TOBE domain; Region: TOBE_2; pfam08402 296591002261 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 296591002262 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 296591002263 Walker A/P-loop; other site 296591002264 ATP binding site [chemical binding]; other site 296591002265 Q-loop/lid; other site 296591002266 ABC transporter signature motif; other site 296591002267 Walker B; other site 296591002268 D-loop; other site 296591002269 H-loop/switch region; other site 296591002270 TOBE domain; Region: TOBE_2; pfam08402 296591002271 DAK2 domain; Region: Dak2; cl03685 296591002272 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481 296591002273 Dihydroxyacetone kinase [Carbohydrate transport and metabolism]; Region: DAK1; COG2376 296591002274 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 296591002275 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 296591002276 putative ligand binding site [chemical binding]; other site 296591002277 MASE1; Region: MASE1; cl17823 296591002278 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 296591002279 Histidine kinase; Region: HisKA_3; pfam07730 296591002280 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 296591002281 ATP binding site [chemical binding]; other site 296591002282 Mg2+ binding site [ion binding]; other site 296591002283 G-X-G motif; other site 296591002284 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 296591002285 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 296591002286 active site 296591002287 phosphorylation site [posttranslational modification] 296591002288 intermolecular recognition site; other site 296591002289 dimerization interface [polypeptide binding]; other site 296591002290 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 296591002291 DNA binding residues [nucleotide binding] 296591002292 dimerization interface [polypeptide binding]; other site 296591002293 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 296591002294 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; pfam02899 296591002295 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 296591002296 active site 296591002297 DNA binding site [nucleotide binding] 296591002298 Int/Topo IB signature motif; other site 296591002299 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 296591002300 active site 296591002301 DNA binding site [nucleotide binding] 296591002302 Int/Topo IB signature motif; other site 296591002303 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 296591002304 INT_SG5, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 5, N- and C-terminal domains. The CD contains mainly predicted bacterial integrase/recombinases; Region: INT_SG5; cd01190 296591002305 Int/Topo IB signature motif; other site 296591002306 Transposase domain (DUF772); Region: DUF772; pfam05598 296591002307 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 296591002308 Sulfate transporter family; Region: Sulfate_transp; pfam00916 296591002309 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 296591002310 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 296591002311 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 296591002312 ligand binding site [chemical binding]; other site 296591002313 flexible hinge region; other site 296591002314 FecR protein; Region: FecR; pfam04773 296591002315 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 296591002316 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 296591002317 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 296591002318 ligand binding site [chemical binding]; other site 296591002319 CHASE2 is an extracellular sensory domain, which is present in various classes of transmembrane receptors that are parts of signal transduction pathways in bacteria; Region: CHASE2; smart01080 296591002320 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 296591002321 cyclase homology domain; Region: CHD; cd07302 296591002322 nucleotidyl binding site; other site 296591002323 metal binding site [ion binding]; metal-binding site 296591002324 dimer interface [polypeptide binding]; other site 296591002325 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591002326 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591002327 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 296591002328 putative effector binding pocket; other site 296591002329 putative dimerization interface [polypeptide binding]; other site 296591002330 FtsH Extracellular; Region: FtsH_ext; pfam06480 296591002331 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 296591002332 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 296591002333 Walker A motif; other site 296591002334 ATP binding site [chemical binding]; other site 296591002335 Walker B motif; other site 296591002336 arginine finger; other site 296591002337 Peptidase family M41; Region: Peptidase_M41; pfam01434 296591002338 cytochrome c oxidase, subunit II; Region: CoxB; TIGR02866 296591002339 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 296591002340 Cytochrome c; Region: Cytochrom_C; pfam00034 296591002341 Heme/copper-type cytochrome/quinol oxidases, subunit 1 [Energy production and conversion]; Region: CyoB; COG0843 296591002342 cytochrome c oxidase, subunit I; Region: CtaD_CoxA; TIGR02891 296591002343 Heme-copper oxidase subunit III. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane. The...; Region: Heme_Cu_Oxidase_III_like; cl00211 296591002344 Subunit I/III interface [polypeptide binding]; other site 296591002345 Heme-copper oxidase subunit III subfamily. Heme-copper oxidases are transmembrane protein complexes in the respiratory chains of prokaryotes and mitochondria which couple the reduction of molecular oxygen to water to, proton pumping across the membrane; Region: Heme_Cu_Oxidase_III_1; cd02864 296591002346 Subunit I/III interface [polypeptide binding]; other site 296591002347 Predicted small integral membrane protein [Function unknown]; Region: COG5605 296591002348 hypothetical protein; Validated; Region: PRK08245 296591002349 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 296591002350 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 296591002351 active site 296591002352 nucleophile elbow; other site 296591002353 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]; Region: COG3970 296591002354 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 296591002355 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 296591002356 Ligand Binding Site [chemical binding]; other site 296591002357 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 296591002358 Transmembrane secretion effector; Region: MFS_3; pfam05977 296591002359 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 296591002360 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 296591002361 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 296591002362 ABC-type uncharacterized transport system, permease and ATPase components [General function prediction only]; Region: COG4178 296591002363 ABC transporter transmembrane region 2; Region: ABC_membrane_2; cl00549 296591002364 ATP-binding cassette domain of peroxisomal transporter, subfamily D; Region: ABCD_peroxisomal_ALDP; cd03223 296591002365 5'-nucleotidase; Region: 5-nucleotidase; pfam06189 296591002366 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; cl11399 296591002367 catalytic core [active] 296591002368 cobalamin synthase; Reviewed; Region: cobS; PRK00235 296591002369 Phosphoribosyltransferase; Region: DBI_PRT; pfam02277 296591002370 Nicotinate-nucleotide-dimethylbenzimidazole phosphoribosyltransferase (DMB-PRT), also called CobT; Region: DMB-PRT_CobT; cd02439 296591002371 putative dimer interface [polypeptide binding]; other site 296591002372 active site pocket [active] 296591002373 putative cataytic base [active] 296591002374 Cysteine-rich CWC; Region: Cys_rich_CWC; pfam14375 296591002375 threonine dehydratase; Reviewed; Region: PRK09224 296591002376 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 296591002377 tetramer interface [polypeptide binding]; other site 296591002378 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591002379 catalytic residue [active] 296591002380 First of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_1; cd04906 296591002381 putative Ile/Val binding site [chemical binding]; other site 296591002382 Second of two tandem C-terminal ACT domains of threonine dehydratase I (ThrD-I; L-threonine hydrolyase); Region: ACT_ThrD-I_2; cd04907 296591002383 putative Ile/Val binding site [chemical binding]; other site 296591002384 OsmC-like protein; Region: OsmC; cl00767 296591002385 Demethoxyubiquinone hydroxylase, ferritin-like diiron-binding domain; Region: DMQH; cd01042 296591002386 diiron binding motif [ion binding]; other site 296591002387 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 296591002388 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 296591002389 trimer interface [polypeptide binding]; other site 296591002390 eyelet of channel; other site 296591002391 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 296591002392 trimer interface [polypeptide binding]; other site 296591002393 eyelet of channel; other site 296591002394 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 296591002395 Protein of unknown function (DUF3047); Region: DUF3047; pfam11249 296591002396 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 296591002397 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 296591002398 metal binding site [ion binding]; metal-binding site 296591002399 putative dimer interface [polypeptide binding]; other site 296591002400 DNA-binding transcriptional regulator HexR; Provisional; Region: PRK11302 296591002401 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 296591002402 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 296591002403 putative active site [active] 296591002404 glucose-6-phosphate 1-dehydrogenase; Validated; Region: PRK05722 296591002405 Glucose-6-phosphate dehydrogenase, NAD binding domain; Region: G6PD_N; pfam00479 296591002406 Glucose-6-phosphate dehydrogenase, C-terminal domain; Region: G6PD_C; pfam02781 296591002407 transaldolase-like protein; Provisional; Region: PTZ00411 296591002408 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 296591002409 active site 296591002410 dimer interface [polypeptide binding]; other site 296591002411 catalytic residue [active] 296591002412 glucose-6-phosphate isomerase; Reviewed; Region: pgi; PRK00179 296591002413 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 296591002414 active site 296591002415 dimer interface [polypeptide binding]; other site 296591002416 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 296591002417 dimer interface [polypeptide binding]; other site 296591002418 active site 296591002419 Homeodomain-like domain; Region: HTH_23; cl17451 296591002420 Winged helix-turn helix; Region: HTH_29; pfam13551 296591002421 Integrase core domain; Region: rve; pfam00665 296591002422 Integrase core domain; Region: rve_3; pfam13683 296591002423 Protein of unknown function (DUF805); Region: DUF805; pfam05656 296591002424 Triacylglycerol lipase-like subfamily of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its...; Region: Triacylglycerol_lipase_like; cd01847 296591002425 active site 296591002426 catalytic triad [active] 296591002427 oxyanion hole [active] 296591002428 Autotransporter beta-domain; Region: Autotransporter; smart00869 296591002429 putative transposase OrfB; Reviewed; Region: PHA02517 296591002430 Integrase core domain; Region: rve; pfam00665 296591002431 Integrase core domain; Region: rve_3; pfam13683 296591002432 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 296591002433 chaperonin GroEL; Reviewed; Region: groEL; PRK12849 296591002434 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 296591002435 ring oligomerisation interface [polypeptide binding]; other site 296591002436 ATP/Mg binding site [chemical binding]; other site 296591002437 stacking interactions; other site 296591002438 hinge regions; other site 296591002439 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 296591002440 oligomerisation interface [polypeptide binding]; other site 296591002441 mobile loop; other site 296591002442 roof hairpin; other site 296591002443 acetyl-CoA synthetase; Provisional; Region: PRK04319 296591002444 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 296591002445 acyl-activating enzyme (AAE) consensus motif; other site 296591002446 AMP binding site [chemical binding]; other site 296591002447 active site 296591002448 CoA binding site [chemical binding]; other site 296591002449 pyruvate dehydrogenase E1 component, alpha subunit; Region: PDH_E1_alph_y; TIGR03182 296591002450 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 296591002451 tetramer interface [polypeptide binding]; other site 296591002452 TPP-binding site [chemical binding]; other site 296591002453 heterodimer interface [polypeptide binding]; other site 296591002454 phosphorylation loop region [posttranslational modification] 296591002455 Pyruvate/2-oxoglutarate dehydrogenase complex, dehydrogenase (E1) component, eukaryotic type, beta subunit [Energy production and conversion]; Region: AcoB; COG0022 296591002456 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 296591002457 alpha subunit interface [polypeptide binding]; other site 296591002458 TPP binding site [chemical binding]; other site 296591002459 heterodimer interface [polypeptide binding]; other site 296591002460 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 296591002461 branched-chain alpha-keto acid dehydrogenase subunit E2; Reviewed; Region: PRK11856 296591002462 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 296591002463 E3 interaction surface; other site 296591002464 lipoyl attachment site [posttranslational modification]; other site 296591002465 e3 binding domain; Region: E3_binding; pfam02817 296591002466 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 296591002467 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 296591002468 CHASE3 domain; Region: CHASE3; pfam05227 296591002469 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 296591002470 Histidine kinase; Region: HisKA_3; pfam07730 296591002471 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 296591002472 ATP binding site [chemical binding]; other site 296591002473 Mg2+ binding site [ion binding]; other site 296591002474 G-X-G motif; other site 296591002475 S-adenosylmethionine synthetase; Validated; Region: PRK05250 296591002476 S-adenosylmethionine synthetase, N-terminal domain; Region: S-AdoMet_synt_N; pfam00438 296591002477 S-adenosylmethionine synthetase, central domain; Region: S-AdoMet_synt_M; pfam02772 296591002478 S-adenosylmethionine synthetase, C-terminal domain; Region: S-AdoMet_synt_C; pfam02773 296591002479 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 296591002480 putative acyl-acceptor binding pocket; other site 296591002481 Bacterial lipid A biosynthesis acyltransferase; Region: Lip_A_acyltrans; pfam03279 296591002482 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 296591002483 putative acyl-acceptor binding pocket; other site 296591002484 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 296591002485 YihA (EngB) GTPase family; Region: YihA_EngB; cd01876 296591002486 G1 box; other site 296591002487 GTP/Mg2+ binding site [chemical binding]; other site 296591002488 Switch I region; other site 296591002489 G2 box; other site 296591002490 G3 box; other site 296591002491 Switch II region; other site 296591002492 G4 box; other site 296591002493 G5 box; other site 296591002494 Cytochrome c553 [Energy production and conversion]; Region: COG2863 296591002495 Cytochrome c; Region: Cytochrom_C; cl11414 296591002496 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 296591002497 ResB-like family; Region: ResB; pfam05140 296591002498 ResB protein required for cytochrome c biosynthesis [Posttranslational modification, protein turnover, chaperones]; Region: ResB; cl09125 296591002499 cytochrome c-type biogenesis protein CcsB; Region: cytochr_II_ccsB; TIGR03144 296591002500 TMAO/DMSO reductase; Reviewed; Region: PRK05363 296591002501 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 296591002502 Moco binding site; other site 296591002503 metal coordination site [ion binding]; other site 296591002504 putative sulfite oxidase subunit YedZ; Reviewed; Region: PRK05419 296591002505 diaminopimelate decarboxylase; Region: lysA; TIGR01048 296591002506 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Diaminopimelate Decarboxylase; Region: PLPDE_III_DapDC; cd06828 296591002507 active site 296591002508 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 296591002509 substrate binding site [chemical binding]; other site 296591002510 catalytic residues [active] 296591002511 dimer interface [polypeptide binding]; other site 296591002512 Frataxin-like domain; Region: Frataxin_Cyay; pfam01491 296591002513 putative iron binding site [ion binding]; other site 296591002514 Membrane carboxypeptidase/penicillin-binding protein [Cell envelope biogenesis, outer membrane]; Region: MrcA; COG5009 296591002515 Transglycosylase; Region: Transgly; pfam00912 296591002516 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 296591002517 Competence protein A; Region: Competence_A; pfam11104 296591002518 Cell division protein FtsA; Region: FtsA; cl17206 296591002519 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 296591002520 nucleotide binding site [chemical binding]; other site 296591002521 Tfp pilus assembly protein PilN [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilN; COG3166 296591002522 Fimbrial assembly protein (PilN); Region: PilN; pfam05137 296591002523 Pilus assembly protein, PilO; Region: PilO; pfam04350 296591002524 Tfp pilus assembly protein PilP [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilP; COG3168 296591002525 Pilus assembly protein, PilP; Region: PilP; pfam04351 296591002526 AMIN domain; Region: AMIN; pfam11741 296591002527 type IV pilus secretin (or competence protein) PilQ; Region: IV_pilus_PilQ; TIGR02515 296591002528 Secretin and TonB N terminus short domain; Region: STN; pfam07660 296591002529 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 296591002530 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 296591002531 shikimate kinase; Reviewed; Region: aroK; PRK00131 296591002532 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 296591002533 ADP binding site [chemical binding]; other site 296591002534 magnesium binding site [ion binding]; other site 296591002535 putative shikimate binding site; other site 296591002536 Dehydroquinate synthase (DHQS) catalyzes the conversion of DAHP to DHQ in shikimate pathway for aromatic compounds synthesis; Region: DHQS; cd08195 296591002537 active site 296591002538 dimer interface [polypeptide binding]; other site 296591002539 metal binding site [ion binding]; metal-binding site 296591002540 deoxyguanosinetriphosphate triphosphohydrolase-like protein; Provisional; Region: PRK01286 296591002541 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 296591002542 Zn2+ binding site [ion binding]; other site 296591002543 Mg2+ binding site [ion binding]; other site 296591002544 Phosphohydrolase-associated domain; Region: HD_assoc; pfam13286 296591002545 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 296591002546 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 296591002547 putative ligand binding site [chemical binding]; other site 296591002548 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG1943 296591002549 glutamate synthase subunit alpha; Provisional; Region: gltB; PRK11750 296591002550 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 296591002551 active site 296591002552 dimer interface [polypeptide binding]; other site 296591002553 Glutamate synthase central domain; Region: Glu_syn_central; pfam04898 296591002554 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 296591002555 active site 296591002556 FMN binding site [chemical binding]; other site 296591002557 substrate binding site [chemical binding]; other site 296591002558 3Fe-4S cluster binding site [ion binding]; other site 296591002559 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 296591002560 domain interface; other site 296591002561 glutamate synthase subunit beta; Reviewed; Region: gltD; PRK12810 296591002562 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 296591002563 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 296591002564 ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2A; COG1127 296591002565 ATP-binding cassette transport system involved in resistant to organic solvents; Region: ABC_Org_Solvent_Resistant; cd03261 296591002566 Walker A/P-loop; other site 296591002567 ATP binding site [chemical binding]; other site 296591002568 Q-loop/lid; other site 296591002569 ABC transporter signature motif; other site 296591002570 Walker B; other site 296591002571 D-loop; other site 296591002572 H-loop/switch region; other site 296591002573 ABC-type transport system involved in resistance to organic solvents, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2B; COG0767 296591002574 Permease; Region: Permease; pfam02405 296591002575 ABC-type transport system involved in resistance to organic solvents, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: Ttg2C; COG1463 296591002576 mce related protein; Region: MCE; pfam02470 296591002577 VacJ like lipoprotein; Region: VacJ; cl01073 296591002578 Toluene tolerance, Ttg2; Region: Tol_Tol_Ttg2; pfam05494 296591002579 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 296591002580 anti sigma factor interaction site; other site 296591002581 regulatory phosphorylation site [posttranslational modification]; other site 296591002582 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 296591002583 ATP-binding cassette domain of the lipid transporters, subfamily A; Region: ABC_subfamily_A; cd03263 296591002584 Walker A/P-loop; other site 296591002585 ATP binding site [chemical binding]; other site 296591002586 Q-loop/lid; other site 296591002587 ABC transporter signature motif; other site 296591002588 Walker B; other site 296591002589 D-loop; other site 296591002590 H-loop/switch region; other site 296591002591 ABC-2 type transporter; Region: ABC2_membrane; cl17235 296591002592 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 296591002593 Predicted transcriptional regulator, BolA superfamily [Transcription]; Region: COG5007 296591002594 UDP-N-acetylglucosamine 1-carboxyvinyltransferase; Region: murA; TIGR01072 296591002595 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 296591002596 hinge; other site 296591002597 active site 296591002598 ATP phosphoribosyltransferase catalytic subunit; Reviewed; Region: hisG; PRK01686 296591002599 ATP phosphoribosyltransferase [Amino acid transport and metabolism]; Region: HisG; COG0040 296591002600 Histidinol dehydrogenase [Amino acid transport and metabolism]; Region: HisD; COG0141 296591002601 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 296591002602 NAD binding site [chemical binding]; other site 296591002603 dimerization interface [polypeptide binding]; other site 296591002604 product binding site; other site 296591002605 substrate binding site [chemical binding]; other site 296591002606 zinc binding site [ion binding]; other site 296591002607 catalytic residues [active] 296591002608 histidinol-phosphate aminotransferase; Provisional; Region: PRK04870 296591002609 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 296591002610 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591002611 homodimer interface [polypeptide binding]; other site 296591002612 catalytic residue [active] 296591002613 Imidazoleglycerol-phosphate dehydratase; Region: IGPD; cd07914 296591002614 putative active site pocket [active] 296591002615 4-fold oligomerization interface [polypeptide binding]; other site 296591002616 metal binding residues [ion binding]; metal-binding site 296591002617 3-fold/trimer interface [polypeptide binding]; other site 296591002618 imidazole glycerol phosphate synthase subunit HisH; Provisional; Region: hisH; PRK13146 296591002619 Type 1 glutamine amidotransferase (GATase1) domain found in imidazole glycerol phosphate synthase (IGPS); Region: GATase1_IGP_Synthase; cd01748 296591002620 putative active site [active] 296591002621 oxyanion strand; other site 296591002622 catalytic triad [active] 296591002623 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 296591002624 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 296591002625 catalytic residues [active] 296591002626 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 296591002627 Histidine biosynthesis protein; Region: His_biosynth; pfam00977 296591002628 substrate binding site [chemical binding]; other site 296591002629 glutamase interaction surface [polypeptide binding]; other site 296591002630 phosphoribosyl-AMP cyclohydrolase; Reviewed; Region: hisI; PRK00051 296591002631 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 296591002632 metal binding site [ion binding]; metal-binding site 296591002633 Predicted membrane protein [Function unknown]; Region: COG3671 296591002634 Protein Kinase C Interacting protein related (PKCI): PKCI and related proteins belong to the ubiquitous HIT family of hydrolases that act on alpha-phosphates of ribonucleotides. The members of this subgroup have a conserved HxHxHxx motif (x is a...; Region: PKCI_related; cd01276 296591002635 nucleotide binding site/active site [active] 296591002636 HIT family signature motif; other site 296591002637 catalytic residue [active] 296591002638 twin arginine translocase protein A; Provisional; Region: tatA; PRK02958 296591002639 sec-independent translocase; Provisional; Region: tatB; PRK01919 296591002640 Sec-independent protein translocase protein (TatC); Region: TatC; cl00521 296591002641 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 296591002642 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 296591002643 protein binding site [polypeptide binding]; other site 296591002644 Uncharacterized conserved protein [Function unknown]; Region: COG0327 296591002645 NIF3 (NGG1p interacting factor 3); Region: NIF3; cl15371 296591002646 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 296591002647 4-hydroxythreonine-4-phosphate dehydrogenase; Region: pdxA; TIGR00557 296591002648 large-conductance mechanosensitive channel; Provisional; Region: mscL; PRK13952 296591002649 large-conductance mechanosensitive channel; Reviewed; Region: mscL; PRK00567 296591002650 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 296591002651 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 296591002652 [2Fe-2S] cluster binding site [ion binding]; other site 296591002653 Cytochrome b subunit of the bc complex [Energy production and conversion]; Region: QcrB; COG1290 296591002654 Cytochrome b (N-terminus)/b6/petB: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: Cytochrome_b_N; cd00284 296591002655 Qi binding site; other site 296591002656 intrachain domain interface; other site 296591002657 interchain domain interface [polypeptide binding]; other site 296591002658 heme bH binding site [chemical binding]; other site 296591002659 heme bL binding site [chemical binding]; other site 296591002660 Qo binding site; other site 296591002661 Cytochrome b(C-terminus)/b6/petD: Cytochrome b is a subunit of cytochrome bc1, an 11-subunit mitochondrial respiratory enzyme. Cytochrome b spans the mitochondrial membrane with 8 transmembrane helices (A-H) in eukaryotes. In plants and cyanobacteria; Region: cytochrome_b_C; cl00193 296591002662 interchain domain interface [polypeptide binding]; other site 296591002663 intrachain domain interface; other site 296591002664 Qi binding site; other site 296591002665 Cytochrome b(C-terminal)/b6/petD; Region: Cytochrom_B_C; pfam00032 296591002666 Qo binding site; other site 296591002667 Cytochrome C1 family; Region: Cytochrom_C1; pfam02167 296591002668 stringent starvation protein A; Provisional; Region: sspA; PRK09481 296591002669 GST_N family, Stringent starvation protein A (SspA) subfamily; SspA is a RNA polymerase (RNAP)-associated protein required for the lytic development of phage P1 and for stationary phase-induced acid tolerance of E. coli. It is implicated in survival...; Region: GST_N_SspA; cd03059 296591002670 C-terminal domain interface [polypeptide binding]; other site 296591002671 putative GSH binding site (G-site) [chemical binding]; other site 296591002672 dimer interface [polypeptide binding]; other site 296591002673 C-terminal, alpha helical domain of Stringent starvation protein A; Region: GST_C_SspA; cd03186 296591002674 dimer interface [polypeptide binding]; other site 296591002675 N-terminal domain interface [polypeptide binding]; other site 296591002676 ClpXP protease specificity-enhancing factor; Provisional; Region: PRK11798 296591002677 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 296591002678 Peptidase family M23; Region: Peptidase_M23; pfam01551 296591002679 preprotein translocase subunit SecA; Reviewed; Region: PRK12904 296591002680 SecA preprotein cross-linking domain; Region: SecA_PP_bind; smart00958 296591002681 SEC-C motif; Region: SEC-C; pfam02810 296591002682 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 296591002683 heterotetramer interface [polypeptide binding]; other site 296591002684 active site pocket [active] 296591002685 cleavage site 296591002686 Predicted ATPase (AAA+ superfamily) [General function prediction only]; Region: COG2607 296591002687 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 296591002688 Walker A motif; other site 296591002689 ATP binding site [chemical binding]; other site 296591002690 Walker B motif; other site 296591002691 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 296591002692 active site 296591002693 8-oxo-dGMP binding site [chemical binding]; other site 296591002694 nudix motif; other site 296591002695 metal binding site [ion binding]; metal-binding site 296591002696 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 296591002697 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 296591002698 N-acetyl-D-glucosamine binding site [chemical binding]; other site 296591002699 catalytic residue [active] 296591002700 prolyl-tRNA synthetase; Provisional; Region: PRK09194 296591002701 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 296591002702 dimer interface [polypeptide binding]; other site 296591002703 motif 1; other site 296591002704 active site 296591002705 motif 2; other site 296591002706 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 296591002707 putative deacylase active site [active] 296591002708 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 296591002709 active site 296591002710 motif 3; other site 296591002711 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 296591002712 anticodon binding site; other site 296591002713 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 296591002714 putative active site [active] 296591002715 Ap4A binding site [chemical binding]; other site 296591002716 nudix motif; other site 296591002717 putative metal binding site [ion binding]; other site 296591002718 CNP1-like family; Region: CNP1; pfam08750 296591002719 gamma-glutamyl kinase; Provisional; Region: PRK05429 296591002720 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 296591002721 nucleotide binding site [chemical binding]; other site 296591002722 homotetrameric interface [polypeptide binding]; other site 296591002723 putative phosphate binding site [ion binding]; other site 296591002724 putative allosteric binding site; other site 296591002725 PUA domain; Region: PUA; pfam01472 296591002726 GTPase CgtA; Reviewed; Region: obgE; PRK12299 296591002727 GTP1/OBG; Region: GTP1_OBG; pfam01018 296591002728 Obg GTPase; Region: Obg; cd01898 296591002729 G1 box; other site 296591002730 GTP/Mg2+ binding site [chemical binding]; other site 296591002731 Switch I region; other site 296591002732 G2 box; other site 296591002733 G3 box; other site 296591002734 Switch II region; other site 296591002735 G4 box; other site 296591002736 G5 box; other site 296591002737 50S ribosomal protein L27; Validated; Region: rpmA; PRK05435 296591002738 50S ribosomal protein L21; Validated; Region: rplU; PRK05573 296591002739 50S ribosomal protein L21/unknown domain fusion protein; Provisional; Region: PRK12278 296591002740 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 296591002741 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 296591002742 substrate binding pocket [chemical binding]; other site 296591002743 chain length determination region; other site 296591002744 substrate-Mg2+ binding site; other site 296591002745 catalytic residues [active] 296591002746 aspartate-rich region 1; other site 296591002747 active site lid residues [active] 296591002748 aspartate-rich region 2; other site 296591002749 type IV-A pilus assembly ATPase PilB; Region: type_IV_pilB; TIGR02538 296591002750 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 296591002751 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 296591002752 Walker A motif; other site 296591002753 ATP binding site [chemical binding]; other site 296591002754 Walker B motif; other site 296591002755 Type II secretory pathway, component PulF [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulF; COG1459 296591002756 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 296591002757 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 296591002758 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 296591002759 Bacterial Peptidase A24 N-terminal domain; Region: DiS_P_DiS; pfam06750 296591002760 Type IV leader peptidase family; Region: Peptidase_A24; pfam01478 296591002761 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 296591002762 Dephospho-CoA kinase [Coenzyme metabolism]; Region: CoaE; COG0237 296591002763 CoA-binding site [chemical binding]; other site 296591002764 ATP-binding [chemical binding]; other site 296591002765 hypothetical protein; Provisional; Region: PRK05287 296591002766 Domain of unknown function (DUF329); Region: DUF329; pfam03884 296591002767 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 296591002768 putative GSH binding site [chemical binding]; other site 296591002769 catalytic residues [active] 296591002770 protein-(glutamine-N5) methyltransferase, release factor-specific; Region: RF_mod_PrmC; TIGR03534 296591002771 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 296591002772 S-adenosylmethionine binding site [chemical binding]; other site 296591002773 peptide chain release factor 1; Validated; Region: prfA; PRK00591 296591002774 This domain is found in peptide chain release factors; Region: PCRF; smart00937 296591002775 RF-1 domain; Region: RF-1; pfam00472 296591002776 glutamyl-tRNA reductase; Reviewed; Region: hemA; PRK00045 296591002777 NADP-binding domain of glutamyl-tRNA reductase; Region: NAD_bind_Glutamyl_tRNA_reduct; cd05213 296591002778 tRNA; other site 296591002779 putative tRNA binding site [nucleotide binding]; other site 296591002780 putative NADP binding site [chemical binding]; other site 296591002781 Glutamyl-tRNAGlu reductase, dimerisation domain; Region: GlutR_dimer; pfam00745 296591002782 cytoplasmic glycerophosphodiester phosphodiesterase; Provisional; Region: ugpQ; PRK09454 296591002783 Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily; Region: PI-PLCc_GDPD_SF; cl14615 296591002784 active site 296591002785 catalytic site [active] 296591002786 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 296591002787 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 296591002788 Walker A/P-loop; other site 296591002789 ATP binding site [chemical binding]; other site 296591002790 Q-loop/lid; other site 296591002791 ABC transporter signature motif; other site 296591002792 Walker B; other site 296591002793 D-loop; other site 296591002794 H-loop/switch region; other site 296591002795 TOBE domain; Region: TOBE_2; pfam08402 296591002796 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 296591002797 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 296591002798 dimer interface [polypeptide binding]; other site 296591002799 conserved gate region; other site 296591002800 putative PBP binding loops; other site 296591002801 ABC-ATPase subunit interface; other site 296591002802 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 296591002803 dimer interface [polypeptide binding]; other site 296591002804 conserved gate region; other site 296591002805 putative PBP binding loops; other site 296591002806 ABC-ATPase subunit interface; other site 296591002807 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 296591002808 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 296591002809 Protein of unknown function (DUF3683); Region: DUF3683; pfam12447 296591002810 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 296591002811 FAD binding domain; Region: FAD_binding_4; pfam01565 296591002812 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 296591002813 4Fe-4S dicluster domain; Region: Fer4_8; pfam13183 296591002814 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 296591002815 Cysteine-rich domain; Region: CCG; pfam02754 296591002816 Cysteine-rich domain; Region: CCG; pfam02754 296591002817 Domain of unknown function (DUF3400); Region: DUF3400; pfam11880 296591002818 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3536 296591002819 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 296591002820 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 296591002821 S-adenosylmethionine binding site [chemical binding]; other site 296591002822 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4627 296591002823 Tim44 is an essential component of the machinery that mediates the translocation of nuclear-encoded proteins across the mitochondrial inner membrane; Region: Tim44; smart00978 296591002824 SCP-2 sterol transfer family; Region: SCP2; pfam02036 296591002825 putative ubiquinone biosynthesis protein UbiB; Reviewed; Region: ubiB; PRK04750 296591002826 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 296591002827 Zinc ribbon domain; Region: CxxC_CxxC_SSSS; cl00993 296591002828 Uncharacterized conserved protein [Function unknown]; Region: COG2928 296591002829 aspartyl-tRNA synthetase; Validated; Region: aspS; PRK00476 296591002830 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 296591002831 dimer interface [polypeptide binding]; other site 296591002832 anticodon binding site; other site 296591002833 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 296591002834 homodimer interface [polypeptide binding]; other site 296591002835 motif 1; other site 296591002836 active site 296591002837 motif 2; other site 296591002838 GAD domain; Region: GAD; pfam02938 296591002839 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 296591002840 motif 3; other site 296591002841 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_7; cd04664 296591002842 nudix motif; other site 296591002843 Catalytic domain, repeat 1, of bacterial cardiolipin synthase and similar proteins; Region: PLDc_CLS_1; cd09110 296591002844 putative active site [active] 296591002845 catalytic site [active] 296591002846 Catalytic domain, repeat 2, of Escherichia coli cardiolipin synthase ybhO and similar proteins; Region: PLDc_ybhO_like_2; cd09159 296591002847 PLD-like domain; Region: PLDc_2; pfam13091 296591002848 putative active site [active] 296591002849 catalytic site [active] 296591002850 Tunnelling fold (T-fold). The five known T-folds are found in five different enzymes with different functions: dihydroneopterin-triphosphate epimerase (DHNTPE), dihydroneopterin aldolase (DHNA) , GTP cyclohydrolase I (GTPCH-1), 6-pyrovoyl...; Region: TFold; cl00263 296591002851 active site 296591002852 Sensors of blue-light using FAD; Region: BLUF; smart01034 296591002853 Staphylococcal nuclease homologues. SNase homologues are found in bacteria, archaea, and eukaryotes. They contain no disufide bonds; Region: SNc; cl00140 296591002854 Micrococcal nuclease (thermonuclease) homologs [DNA replication, recombination, and repair]; Region: COG1525 296591002855 Catalytic site; other site 296591002856 BON domain; Region: BON; pfam04972 296591002857 BON domain; Region: BON; pfam04972 296591002858 CHASE3 domain; Region: CHASE3; pfam05227 296591002859 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG4585 296591002860 Histidine kinase; Region: HisKA_3; pfam07730 296591002861 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 296591002862 ATP binding site [chemical binding]; other site 296591002863 Mg2+ binding site [ion binding]; other site 296591002864 G-X-G motif; other site 296591002865 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 296591002866 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 296591002867 active site 296591002868 phosphorylation site [posttranslational modification] 296591002869 intermolecular recognition site; other site 296591002870 dimerization interface [polypeptide binding]; other site 296591002871 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 296591002872 DNA binding residues [nucleotide binding] 296591002873 dimerization interface [polypeptide binding]; other site 296591002874 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 296591002875 Response regulator receiver domain; Region: Response_reg; pfam00072 296591002876 active site 296591002877 phosphorylation site [posttranslational modification] 296591002878 intermolecular recognition site; other site 296591002879 dimerization interface [polypeptide binding]; other site 296591002880 Uncharacterized protein involved in outer membrane biogenesis [Cell envelope biogenesis, outer membrane]; Region: AsmA; COG2982 296591002881 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 296591002882 molybdopterin biosynthesis protein MoeB; Provisional; Region: PRK05690 296591002883 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 296591002884 ATP binding site [chemical binding]; other site 296591002885 substrate interface [chemical binding]; other site 296591002886 C-terminal processing peptidase family S41; Region: Peptidase_S41; cl02526 296591002887 C-terminal peptidase (prc); Region: prc; TIGR00225 296591002888 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 296591002889 protein binding site [polypeptide binding]; other site 296591002890 C-terminal processing peptidase; serine protease family S41; Region: Peptidase_S41_CPP; cd07560 296591002891 Catalytic dyad [active] 296591002892 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 296591002893 catalytic core [active] 296591002894 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 296591002895 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 296591002896 active site residue [active] 296591002897 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 296591002898 GSH binding site [chemical binding]; other site 296591002899 catalytic residues [active] 296591002900 preprotein translocase subunit SecB; Validated; Region: PRK05751 296591002901 SecA binding site; other site 296591002902 Preprotein binding site; other site 296591002903 NAD(P)H-dependent glycerol-3-phosphate dehydrogenase; Validated; Region: gpsA; PRK00094 296591002904 NAD-dependent glycerol-3-phosphate dehydrogenase N-terminus; Region: NAD_Gly3P_dh_N; pfam01210 296591002905 NAD-dependent glycerol-3-phosphate dehydrogenase C-terminus; Region: NAD_Gly3P_dh_C; pfam07479 296591002906 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]; Region: COG1917 296591002907 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 296591002908 Predicted membrane protein [Function unknown]; Region: COG5393 296591002909 Protein of unknown function (DUF3318); Region: DUF3318; pfam11780 296591002910 pantoate--beta-alanine ligase; Region: panC; TIGR00018 296591002911 pantoate--beta-alanine ligase; Reviewed; Region: panC; PRK00380 296591002912 active site 296591002913 nucleotide binding site [chemical binding]; other site 296591002914 HIGH motif; other site 296591002915 KMSKS motif; other site 296591002916 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 296591002917 oligomerization interface [polypeptide binding]; other site 296591002918 active site 296591002919 metal binding site [ion binding]; metal-binding site 296591002920 biotin synthase; Region: bioB; TIGR00433 296591002921 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 296591002922 FeS/SAM binding site; other site 296591002923 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 296591002924 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 296591002925 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 296591002926 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 296591002927 catalytic residue [active] 296591002928 dithiobiotin synthetase; Reviewed; Region: bioD; PRK00090 296591002929 AAA domain; Region: AAA_26; pfam13500 296591002930 adenosylmethionine--8-amino-7-oxononanoate transaminase; Provisional; Region: PRK06943 296591002931 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 296591002932 inhibitor-cofactor binding pocket; inhibition site 296591002933 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591002934 catalytic residue [active] 296591002935 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 296591002936 tetramerization interface [polypeptide binding]; other site 296591002937 active site 296591002938 nicotinate-nucleotide pyrophosphorylase; Provisional; Region: PRK05742 296591002939 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 296591002940 dimerization interface [polypeptide binding]; other site 296591002941 active site 296591002942 quinolinate synthetase; Provisional; Region: PRK09375 296591002943 aminodeoxychorismate synthase; Provisional; Region: PRK07508 296591002944 chorismate binding enzyme; Region: Chorismate_bind; cl10555 296591002945 substrate-cofactor binding pocket; other site 296591002946 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591002947 PyridoxaL 5'-Phosphate Dependent Enzymes class IV (PLPDE_IV). This D-amino acid superfamily, one of five classes of PLPDE, consists of branched-chain amino acid aminotransferases (BCAT), D-amino acid transferases (DAAT), and...; Region: PLPDE_IV; cl00224 296591002948 L-aspartate oxidase; Provisional; Region: PRK09077 296591002949 L-aspartate oxidase; Provisional; Region: PRK06175 296591002950 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 296591002951 Rec8/ScpA/Scc1-like protein (kleisin family) [Replication, recombination, and repair]; Region: scpA; COG1354 296591002952 Protein of unknown function (DUF3460); Region: DUF3460; pfam11943 296591002953 SmpA / OmlA family; Region: SmpA_OmlA; cl17115 296591002954 Protein of unknown function (DUF1275); Region: DUF1275; pfam06912 296591002955 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 296591002956 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 296591002957 Ribbon-helix-helix protein, copG family; Region: RHH_1; pfam01402 296591002958 hydrogenase 4 subunit B; Validated; Region: PRK06521 296591002959 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 296591002960 Formate hydrogenlyase subunit 4 [Energy production and conversion]; Region: HyfC; COG0650 296591002961 Hydrogenase 4 membrane component (E) [Energy production and conversion]; Region: HyfE; cl17899 296591002962 hydrogenase 4 subunit F; Validated; Region: PRK06458 296591002963 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 296591002964 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 296591002965 Ni,Fe-hydrogenase III large subunit [Energy production and conversion]; Region: HycE; COG3261 296591002966 NADH dehydrogenase subunit D; Validated; Region: PRK06075; cl17338 296591002967 Ni,Fe-hydrogenase III small subunit [Energy production and conversion]; Region: COG3260 296591002968 putative transporter; Provisional; Region: PRK11660 296591002969 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 296591002970 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 296591002971 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 296591002972 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 296591002973 metal binding site [ion binding]; metal-binding site 296591002974 nucleotidyl binding site; other site 296591002975 methionyl-tRNA synthetase; Reviewed; Region: metG; PRK00133 296591002976 catalytic core domain of methioninyl-tRNA synthetases; Region: MetRS_core; cd00814 296591002977 active site 296591002978 HIGH motif; other site 296591002979 KMSKS motif; other site 296591002980 Anticodon-binding domain of methionyl tRNA synthetases; Region: Anticodon_Ia_Met; cd07957 296591002981 tRNA binding surface [nucleotide binding]; other site 296591002982 anticodon binding site; other site 296591002983 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 296591002984 dimer interface [polypeptide binding]; other site 296591002985 putative tRNA-binding site [nucleotide binding]; other site 296591002986 Found in ATP-dependent protease La (LON); Region: LON; smart00464 296591002987 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 296591002988 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 296591002989 Walker A motif; other site 296591002990 ATP binding site [chemical binding]; other site 296591002991 Walker B motif; other site 296591002992 arginine finger; other site 296591002993 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 296591002994 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4876 296591002995 PhosphatidylEthanolamine-Binding Protein (PEBP) domain present in bacteria and archaea; Region: PEBP_bact_arch; cd00865 296591002996 substrate binding site [chemical binding]; other site 296591002997 This family is the oxydase domain of NRPS (non-ribosomal peptide synthetase) and other proteins that modify polypeptides by cyclizing a thioester to form a ring. These include epoB, part of the epothilone biosynthesis pathway; tubD, part of the tubulysin...; Region: mcbC-like_oxidoreductase; cd02142 296591002998 putative FMN binding site [chemical binding]; other site 296591002999 NADPH bind site [chemical binding]; other site 296591003000 Domain of unknown function DUF59; Region: DUF59; pfam01883 296591003001 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Mrp; COG0489 296591003002 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 296591003003 Walker A motif; other site 296591003004 Protein of unknown function (DUF3305); Region: DUF3305; pfam11749 296591003005 Protein of unknown function (DUF3306); Region: DUF3306; pfam11748 296591003006 4Fe-4S binding domain; Region: Fer4; pfam00037 296591003007 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 296591003008 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 296591003009 4Fe-4S binding domain; Region: Fer4; pfam00037 296591003010 4Fe-4S dicluster domain; Region: Fer4_10; pfam13237 296591003011 Nitrate reductase delta subunit; Region: Nitrate_red_del; pfam02613 296591003012 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_Formate-Dh-Na-like; cd02752 296591003013 [4Fe-4S] binding site [ion binding]; other site 296591003014 molybdopterin cofactor binding site; other site 296591003015 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 296591003016 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 296591003017 Formate dehydrogenase N, alpha subunit (Formate-Dh-Na) is a major component of nitrate respiration in bacteria such as in the E. coli formate dehydrogenase N (Fdh-N). Fdh-N is a membrane protein that is a complex of three different subunits and is the...; Region: MopB_CT_Formate-Dh-Na-like; cd02792 296591003018 molybdopterin cofactor binding site; other site 296591003019 DMSO reductase, iron-sulfur subunit; Region: DMSO_dmsB; TIGR02951 296591003020 Cytochrome b subunit of formate dehydrogenase [Energy production and conversion]; Region: FdnI; COG2864 296591003021 formate dehydrogenase, gamma subunit; Region: formate-DH-gamm; TIGR01583 296591003022 FdhD/NarQ family; Region: FdhD-NarQ; pfam02634 296591003023 Peptidase C13 family; Region: Peptidase_C13; cl02159 296591003024 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3127 296591003025 Truncated hemoglobins (trHbs) are a family of oxygen-binding heme proteins found in cyanobacteria, eubacteria, unicellular eukaryotes, and plants. The truncated hemoglobins have a characteristic two-over-two alpha helical folding pattern that is distinct...; Region: Trunc_globin; cd00454 296591003026 apolar tunnel; other site 296591003027 heme binding site [chemical binding]; other site 296591003028 dimerization interface [polypeptide binding]; other site 296591003029 Patatin-like phospholipase; Region: Patatin; pfam01734 296591003030 active site 296591003031 nucleophile elbow; other site 296591003032 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2840 296591003033 Smr domain; Region: Smr; pfam01713 296591003034 hypothetical protein; Reviewed; Region: PRK00024 296591003035 Mov34/MPN/PAD-1 family; Region: MPN_DUF2466; cd08071 296591003036 MPN+ (JAMM) motif; other site 296591003037 Zinc-binding site [ion binding]; other site 296591003038 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 296591003039 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 296591003040 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 296591003041 putative active site [active] 296591003042 putative NTP binding site [chemical binding]; other site 296591003043 putative nucleic acid binding site [nucleotide binding]; other site 296591003044 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 296591003045 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 296591003046 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 296591003047 active site 296591003048 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 296591003049 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 296591003050 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed; Region: ispH; PRK01045 296591003051 4-Hydroxy-3-methylbut-2-enyl diphosphate reductase IspH [Lipid metabolism]; Region: lytB; COG0761 296591003052 threonine dehydratase; Provisional; Region: PRK08246 296591003053 serine racemase; Region: PLN02970 296591003054 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 296591003055 catalytic residue [active] 296591003056 seryl-tRNA synthetase; Provisional; Region: PRK05431 296591003057 Seryl-tRNA synthetase N-terminal domain; Region: Seryl_tRNA_N; pfam02403 296591003058 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 296591003059 dimer interface [polypeptide binding]; other site 296591003060 active site 296591003061 motif 1; other site 296591003062 motif 2; other site 296591003063 motif 3; other site 296591003064 Domain of unknown function (DUF955); Region: DUF955; pfam06114 296591003065 Carbohydrate binding domain; Region: CBM_5_12; pfam02839 296591003066 aromatic chitin/cellulose binding site residues [chemical binding]; other site 296591003067 Phage capsid family; Region: Phage_capsid; pfam05065 296591003068 Phage terminase, small subunit; Region: Terminase_4; cl01525 296591003069 AAA domain; Region: AAA_25; pfam13481 296591003070 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 296591003071 Walker A motif; other site 296591003072 ATP binding site [chemical binding]; other site 296591003073 Walker B motif; other site 296591003074 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 296591003075 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 296591003076 active site 296591003077 Int/Topo IB signature motif; other site 296591003078 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 296591003079 Prephenate dehydratase; Region: PDT; pfam00800 296591003080 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 296591003081 putative L-Phe binding site [chemical binding]; other site 296591003082 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 296591003083 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 296591003084 Domain of unknown function (DUF336); Region: DUF336; cl01249 296591003085 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591003086 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591003087 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591003088 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 296591003089 putative dimerization interface [polypeptide binding]; other site 296591003090 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 296591003091 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 296591003092 putative substrate translocation pore; other site 296591003093 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591003094 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to DntR, which is involved in the catabolism of dinitrotoluene; contains the type 2 periplasmic binding fold; Region: PBP2_DntR_like_1; cd08460 296591003095 putative substrate binding pocket [chemical binding]; other site 296591003096 putative dimerization interface [polypeptide binding]; other site 296591003097 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 296591003098 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591003099 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 296591003100 substrate binding pocket [chemical binding]; other site 296591003101 dimerization interface [polypeptide binding]; other site 296591003102 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 296591003103 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 296591003104 catalytic loop [active] 296591003105 iron binding site [ion binding]; other site 296591003106 The oxygenase reductase FAD/NADH binding domain acts as part of the multi-component bacterial oxygenases which oxidize hydrocarbons using oxygen as the oxidant. Electron transfer is from NADH via FAD (in the oxygenase reductase) and an [2FE-2S]...; Region: O2ase_reductase_like; cd06187 296591003107 FAD binding pocket [chemical binding]; other site 296591003108 FAD binding motif [chemical binding]; other site 296591003109 phosphate binding motif [ion binding]; other site 296591003110 beta-alpha-beta structure motif; other site 296591003111 NAD binding pocket [chemical binding]; other site 296591003112 gentisate 1,2-dioxygenase; Region: gentisate_1_2; TIGR02272 296591003113 Cupin domain; Region: Cupin_2; pfam07883 296591003114 Cupin domain; Region: Cupin_2; pfam07883 296591003115 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 296591003116 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 296591003117 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 296591003118 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; cl00938 296591003119 iron-sulfur cluster [ion binding]; other site 296591003120 [2Fe-2S] cluster binding site [ion binding]; other site 296591003121 C-terminal catalytic domain of the large/alpha subunit (ahdA1c) of a ring-hydroxylating dioxygenase from Sphingomonas sp. strain P2 and related proteins; Region: RHO_alpha_C_ahdA1c-like; cd08880 296591003122 putative alpha subunit interface [polypeptide binding]; other site 296591003123 putative active site [active] 296591003124 putative substrate binding site [chemical binding]; other site 296591003125 Fe binding site [ion binding]; other site 296591003126 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 296591003127 inter-subunit interface; other site 296591003128 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 296591003129 [2Fe-2S] cluster binding site [ion binding]; other site 296591003130 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 296591003131 Type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway; Region: PBP1_Nba_like; cd06359 296591003132 putative ligand binding site [chemical binding]; other site 296591003133 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 296591003134 TM-ABC transporter signature motif; other site 296591003135 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 296591003136 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 296591003137 TM-ABC transporter signature motif; other site 296591003138 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 296591003139 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 296591003140 Walker A/P-loop; other site 296591003141 ATP binding site [chemical binding]; other site 296591003142 Q-loop/lid; other site 296591003143 ABC transporter signature motif; other site 296591003144 Walker B; other site 296591003145 D-loop; other site 296591003146 H-loop/switch region; other site 296591003147 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 296591003148 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 296591003149 Walker A/P-loop; other site 296591003150 ATP binding site [chemical binding]; other site 296591003151 Q-loop/lid; other site 296591003152 ABC transporter signature motif; other site 296591003153 Walker B; other site 296591003154 D-loop; other site 296591003155 H-loop/switch region; other site 296591003156 maleylacetoacetate isomerase; Region: maiA; TIGR01262 296591003157 GST_N family, Class Zeta 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_Zeta; cd03042 296591003158 C-terminal domain interface [polypeptide binding]; other site 296591003159 GSH binding site (G-site) [chemical binding]; other site 296591003160 putative dimer interface [polypeptide binding]; other site 296591003161 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 296591003162 dimer interface [polypeptide binding]; other site 296591003163 N-terminal domain interface [polypeptide binding]; other site 296591003164 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 296591003165 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 296591003166 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 296591003167 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 296591003168 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; cl00938 296591003169 iron-sulfur cluster [ion binding]; other site 296591003170 [2Fe-2S] cluster binding site [ion binding]; other site 296591003171 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 296591003172 alpha subunit interface [polypeptide binding]; other site 296591003173 active site 296591003174 substrate binding site [chemical binding]; other site 296591003175 Fe binding site [ion binding]; other site 296591003176 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 296591003177 Type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway; Region: PBP1_Nba_like; cd06359 296591003178 putative ligand binding site [chemical binding]; other site 296591003179 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 296591003180 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 296591003181 FMN-binding pocket [chemical binding]; other site 296591003182 flavin binding motif; other site 296591003183 phosphate binding motif [ion binding]; other site 296591003184 beta-alpha-beta structure motif; other site 296591003185 NAD binding pocket [chemical binding]; other site 296591003186 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 296591003187 catalytic loop [active] 296591003188 iron binding site [ion binding]; other site 296591003189 Winged helix-turn-helix DNA-binding; Region: HTH_35; cl17423 296591003190 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 296591003191 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 296591003192 non-specific DNA binding site [nucleotide binding]; other site 296591003193 salt bridge; other site 296591003194 sequence-specific DNA binding site [nucleotide binding]; other site 296591003195 Predicted transcriptional regulator [Transcription]; Region: COG2932 296591003196 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 296591003197 Catalytic site [active] 296591003198 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 296591003199 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 296591003200 dimer interface [polypeptide binding]; other site 296591003201 phosphorylation site [posttranslational modification] 296591003202 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 296591003203 ATP binding site [chemical binding]; other site 296591003204 G-X-G motif; other site 296591003205 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 296591003206 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 296591003207 active site 296591003208 phosphorylation site [posttranslational modification] 296591003209 intermolecular recognition site; other site 296591003210 dimerization interface [polypeptide binding]; other site 296591003211 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 296591003212 DNA binding residues [nucleotide binding] 296591003213 dimerization interface [polypeptide binding]; other site 296591003214 tryptophanyl-tRNA synthetase; Reviewed; Region: PRK12284 296591003215 catalytic core domain of tryptophanyl-tRNA synthetase; Region: TrpRS_core; cd00806 296591003216 active site 296591003217 HIGH motif; other site 296591003218 dimer interface [polypeptide binding]; other site 296591003219 KMSKS motif; other site 296591003220 Domain of unknown function (DUF1508); Region: DUF1508; cl01356 296591003221 Uncharacterized homologs of Site-2 protease (S2P), zinc metalloproteases (MEROPS family M50) which cleave transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of the...; Region: S2P-M50_like_1; cd06158 296591003222 Peptidase family M50; Region: Peptidase_M50; pfam02163 296591003223 active site 296591003224 putative substrate binding region [chemical binding]; other site 296591003225 Telomere recombination; Region: Sua5_yciO_yrdC; cl00305 296591003226 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 296591003227 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]; Region: COG0613 296591003228 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 296591003229 active site 296591003230 Polymerase and Histidinol Phosphatase domain of Histidinol phosphate phosphatase (HisPPase) AMP bound; Region: PHP_HisPPase_AMP; cd07438 296591003231 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 296591003232 Transcriptional regulators [Transcription]; Region: GntR; COG1802 296591003233 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591003234 DNA-binding site [nucleotide binding]; DNA binding site 296591003235 FCD domain; Region: FCD; pfam07729 296591003236 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 296591003237 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 296591003238 dimer interface [polypeptide binding]; other site 296591003239 conserved gate region; other site 296591003240 ABC-ATPase subunit interface; other site 296591003241 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 296591003242 dimer interface [polypeptide binding]; other site 296591003243 conserved gate region; other site 296591003244 putative PBP binding loops; other site 296591003245 ABC-ATPase subunit interface; other site 296591003246 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 296591003247 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 296591003248 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 296591003249 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 296591003250 Walker A/P-loop; other site 296591003251 ATP binding site [chemical binding]; other site 296591003252 Q-loop/lid; other site 296591003253 ABC transporter signature motif; other site 296591003254 Walker B; other site 296591003255 D-loop; other site 296591003256 H-loop/switch region; other site 296591003257 TOBE domain; Region: TOBE_2; pfam08402 296591003258 ssDNA exonuclease RecJ; Provisional; Region: PRK11070 296591003259 DHH family; Region: DHH; pfam01368 296591003260 DHHA1 domain; Region: DHHA1; pfam02272 296591003261 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4255 296591003262 lipoprotein releasing system, transmembrane protein, LolC/E family; Region: lolCE; TIGR02212 296591003263 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 296591003264 FtsX-like permease family; Region: FtsX; pfam02687 296591003265 lipoprotein releasing system, ATP-binding protein; Region: LolD_lipo_ex; TIGR02211 296591003266 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 296591003267 Walker A/P-loop; other site 296591003268 ATP binding site [chemical binding]; other site 296591003269 Q-loop/lid; other site 296591003270 ABC transporter signature motif; other site 296591003271 Walker B; other site 296591003272 D-loop; other site 296591003273 H-loop/switch region; other site 296591003274 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 296591003275 putative active site [active] 296591003276 type I secretion system ABC transporter, HlyB family; Region: type_I_sec_HlyB; TIGR01846 296591003277 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 296591003278 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 296591003279 Walker A/P-loop; other site 296591003280 ATP binding site [chemical binding]; other site 296591003281 Q-loop/lid; other site 296591003282 ABC transporter signature motif; other site 296591003283 Walker B; other site 296591003284 D-loop; other site 296591003285 H-loop/switch region; other site 296591003286 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 296591003287 HlyD family secretion protein; Region: HlyD_3; pfam13437 296591003288 outer membrane channel protein; Reviewed; Region: tolC; PRK09465 296591003289 RTX toxin acyltransferase family; Region: HlyC; pfam02794 296591003290 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 296591003291 active site 296591003292 substrate binding pocket [chemical binding]; other site 296591003293 dimer interface [polypeptide binding]; other site 296591003294 Uncharacterized conserved protein [Function unknown]; Region: COG1432 296591003295 Uncharacterized subfamily of N-terminal LabA-like domains; Region: LabA_like_N_1; cd11297 296591003296 putative metal binding site [ion binding]; other site 296591003297 C-terminal domain of LabA_like proteins; Region: LabA_like_C; cd10146 296591003298 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 296591003299 FAD binding domain; Region: FAD_binding_4; pfam01565 296591003300 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 296591003301 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 296591003302 ligand binding site [chemical binding]; other site 296591003303 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 296591003304 Phosphoenolpyruvate phosphomutase; Region: PEP_mutase; pfam13714 296591003305 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 296591003306 tetramer interface [polypeptide binding]; other site 296591003307 active site 296591003308 Mg2+/Mn2+ binding site [ion binding]; other site 296591003309 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 296591003310 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591003311 DNA-binding site [nucleotide binding]; DNA binding site 296591003312 FCD domain; Region: FCD; pfam07729 296591003313 Protein of unknown function (DUF3025); Region: DUF3025; pfam11227 296591003314 heat shock protein HtpX; Provisional; Region: PRK05457 296591003315 putative RNA binding sites [nucleotide binding]; other site 296591003316 ProQ/FINO family; Region: ProQ; smart00945 296591003317 N-formimino-L-glutamate deiminase; Validated; Region: PRK09229 296591003318 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 296591003319 active site 296591003320 imidazolonepropionase; Validated; Region: PRK09356 296591003321 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 296591003322 active site 296591003323 HutD; Region: HutD; pfam05962 296591003324 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 296591003325 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 296591003326 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 296591003327 Walker A/P-loop; other site 296591003328 ATP binding site [chemical binding]; other site 296591003329 Q-loop/lid; other site 296591003330 ABC transporter signature motif; other site 296591003331 Walker B; other site 296591003332 D-loop; other site 296591003333 H-loop/switch region; other site 296591003334 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 296591003335 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 296591003336 dimer interface [polypeptide binding]; other site 296591003337 conserved gate region; other site 296591003338 putative PBP binding loops; other site 296591003339 ABC-ATPase subunit interface; other site 296591003340 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 296591003341 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 296591003342 substrate binding pocket [chemical binding]; other site 296591003343 membrane-bound complex binding site; other site 296591003344 hinge residues; other site 296591003345 Transcriptional regulator [Transcription]; Region: IclR; COG1414 296591003346 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 296591003347 putative DNA binding site [nucleotide binding]; other site 296591003348 putative Zn2+ binding site [ion binding]; other site 296591003349 Bacterial transcriptional regulator; Region: IclR; pfam01614 296591003350 urocanate hydratase; Provisional; Region: PRK05414 296591003351 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 296591003352 active sites [active] 296591003353 tetramer interface [polypeptide binding]; other site 296591003354 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 296591003355 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591003356 DNA-binding site [nucleotide binding]; DNA binding site 296591003357 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 296591003358 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 296591003359 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 296591003360 Walker A/P-loop; other site 296591003361 ATP binding site [chemical binding]; other site 296591003362 Q-loop/lid; other site 296591003363 ABC transporter signature motif; other site 296591003364 Walker B; other site 296591003365 D-loop; other site 296591003366 H-loop/switch region; other site 296591003367 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 296591003368 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 296591003369 dimer interface [polypeptide binding]; other site 296591003370 conserved gate region; other site 296591003371 putative PBP binding loops; other site 296591003372 ABC-ATPase subunit interface; other site 296591003373 ABC transporter periplasmic binding protein, urea carboxylase region; Region: ABC_peri_uca; TIGR03427 296591003374 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 296591003375 Uncharacterized FAD-dependent dehydrogenases [General function prediction only]; Region: COG2509 296591003376 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 296591003377 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 296591003378 substrate binding pocket [chemical binding]; other site 296591003379 membrane-bound complex binding site; other site 296591003380 hinge residues; other site 296591003381 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 296591003382 Transcriptional regulators [Transcription]; Region: GntR; COG1802 296591003383 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591003384 DNA-binding site [nucleotide binding]; DNA binding site 296591003385 FCD domain; Region: FCD; pfam07729 296591003386 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 296591003387 Putative catalytic domain of uncharacterized prokaryotic polysaccharide deacetylases similar to bacterial PuuE allantoinases; Region: CE4_PuuE_like; cd10979 296591003388 putative active site [active] 296591003389 putative catalytic site [active] 296591003390 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 296591003391 nudix motif; other site 296591003392 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 296591003393 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591003394 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 296591003395 Uncharacterized conserved protein [Function unknown]; Region: COG2128 296591003396 diaminopimelate epimerase; Provisional; Region: dapF; PRK00450 296591003397 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 296591003398 Diaminopimelate epimerase; Region: DAP_epimerase; pfam01678 296591003399 Protein of unknown function, DUF484; Region: DUF484; cl17449 296591003400 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 296591003401 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 296591003402 active site 296591003403 DNA binding site [nucleotide binding] 296591003404 Int/Topo IB signature motif; other site 296591003405 7TMR-DISM extracellular 2; Region: 7TMR-DISMED2; pfam07696 296591003406 7TM diverse intracellular signalling; Region: 7TMR-DISM_7TM; pfam07695 296591003407 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 296591003408 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 296591003409 metal binding site [ion binding]; metal-binding site 296591003410 active site 296591003411 I-site; other site 296591003412 PUA domain; Region: PUA; cl00607 296591003413 23S rRNA m(5)C1962 methyltransferase; Provisional; Region: PRK15128 296591003414 Middle domain of the SAM-dependent methyltransferase RlmI and related proteins; Region: RlmI_M_like; cd11572 296591003415 putative RNA binding site [nucleotide binding]; other site 296591003416 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 296591003417 S-adenosylmethionine binding site [chemical binding]; other site 296591003418 Putative GTPases (G3E family) [General function prediction only]; Region: COG0523 296591003419 The function of this protein family is unkown. The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage...; Region: CobW_like; cd03112 296591003420 P-loop, Walker A motif; other site 296591003421 Base recognition motif; other site 296591003422 Cobalamin synthesis protein cobW C-terminal domain; Region: CobW_C; pfam07683 296591003423 RNA polymerase-binding protein DksA; Region: dksA; TIGR02420 296591003424 STAS domain; Region: STAS_2; pfam13466 296591003425 cell division protein MraZ; Reviewed; Region: PRK00326 296591003426 MraZ protein; Region: MraZ; pfam02381 296591003427 MraZ protein; Region: MraZ; pfam02381 296591003428 MraW methylase family; Region: Methyltransf_5; cl17771 296591003429 16S rRNA m(4)C1402 methyltranserfase; Provisional; Region: PRK00050 296591003430 Cell division protein FtsL; Region: FtsL; pfam04999 296591003431 Cell division protein FtsI/penicillin-binding protein 2 [Cell envelope biogenesis, outer membrane]; Region: FtsI; COG0768 296591003432 Penicillin-binding Protein dimerisation domain; Region: PBP_dimer; pfam03717 296591003433 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; pfam00905 296591003434 UDP-N-acetylmuramoylalanyl-D-glutamate--2, 6-diaminopimelate ligase; Provisional; Region: murE; PRK00139 296591003435 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 296591003436 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 296591003437 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 296591003438 UDP-N-acetylmuramoyl-tripeptide--D-alanyl-D-alanine ligase; Region: murF; TIGR01143 296591003439 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 296591003440 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 296591003441 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 296591003442 phospho-N-acetylmuramoyl-pentapeptide-transferase; Provisional; Region: mraY; PRK00108 296591003443 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 296591003444 Mg++ binding site [ion binding]; other site 296591003445 putative catalytic motif [active] 296591003446 putative substrate binding site [chemical binding]; other site 296591003447 UDP-N-acetylmuramoyl-L-alanyl-D-glutamate synthetase; Provisional; Region: murD; PRK02006 296591003448 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 296591003449 cell division protein FtsW; Region: ftsW; TIGR02614 296591003450 undecaprenyldiphospho-muramoylpentapeptide beta-N- acetylglucosaminyltransferase; Provisional; Region: murG; PRK00726 296591003451 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 296591003452 active site 296591003453 homodimer interface [polypeptide binding]; other site 296591003454 UDP-N-acetylmuramate--L-alanine ligase; Provisional; Region: murC; PRK00421 296591003455 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 296591003456 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 296591003457 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 296591003458 D-alanine--D-alanine ligase; Reviewed; Region: ddl; PRK01372 296591003459 D-ala D-ala ligase N-terminus; Region: Dala_Dala_lig_N; pfam01820 296591003460 ATP-grasp domain; Region: ATP-grasp_4; cl17255 296591003461 POTRA domain, FtsQ-type; Region: POTRA_1; pfam08478 296591003462 Cell division protein FtsQ; Region: FtsQ; pfam03799 296591003463 cell division protein FtsA; Region: ftsA; TIGR01174 296591003464 Cell division protein FtsA; Region: FtsA; smart00842 296591003465 Cell division protein FtsA; Region: FtsA; pfam14450 296591003466 cell division protein FtsZ; Validated; Region: PRK09330 296591003467 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 296591003468 nucleotide binding site [chemical binding]; other site 296591003469 SulA interaction site; other site 296591003470 UDP-3-O-[3-hydroxymyristoyl] N-acetylglucosamine deacetylase; Reviewed; Region: lpxC; PRK13186 296591003471 UDP-3-O-acyl N-acetylglycosamine deacetylase; Region: LpxC; pfam03331 296591003472 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 296591003473 active site 296591003474 putative DNA-binding cleft [nucleotide binding]; other site 296591003475 dimer interface [polypeptide binding]; other site 296591003476 Predicted CDP-diglyceride synthetase/phosphatidate cytidylyltransferase [General function prediction only]; Region: COG4589 296591003477 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 296591003478 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 296591003479 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 296591003480 putative acyl-acceptor binding pocket; other site 296591003481 Transglycosylase; Region: Transgly; cl17702 296591003482 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 296591003483 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 296591003484 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 296591003485 shikimate binding site; other site 296591003486 NAD(P) binding site [chemical binding]; other site 296591003487 Gram-negative bacterial tonB protein; Region: TonB; cl10048 296591003488 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 296591003489 RNB domain; Region: RNB; pfam00773 296591003490 Uncharacterized protein family (UPF0227); Region: UPF0227; cl14886 296591003491 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 296591003492 rod shape-determining protein RodA; Region: rodA_shape; TIGR02210 296591003493 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 296591003494 Domain of unknown function (DUF1508); Region: DUF1508; pfam07411 296591003495 protease TldD; Provisional; Region: tldD; PRK10735 296591003496 phospho-2-dehydro-3-deoxyheptonate aldolase; Validated; Region: PRK09261 296591003497 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 296591003498 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase; Region: mpl; TIGR01081 296591003499 Mur ligase family, catalytic domain; Region: Mur_ligase; pfam01225 296591003500 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 296591003501 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 296591003502 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 296591003503 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 296591003504 catalytic residues [active] 296591003505 acetyl-CoA carboxylase biotin carboxyl carrier protein subunit; Validated; Region: PRK06302 296591003506 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 296591003507 carboxyltransferase (CT) interaction site; other site 296591003508 biotinylation site [posttranslational modification]; other site 296591003509 acetyl-CoA carboxylase biotin carboxylase subunit; Validated; Region: PRK08591 296591003510 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 296591003511 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 296591003512 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 296591003513 ribosomal protein L11 methyltransferase; Reviewed; Region: prmA; PRK00517 296591003514 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 296591003515 zinc-ribbon domain; Region: zinc_ribbon_5; pfam13719 296591003516 Protein of unknown function (DUF3426); Region: DUF3426; pfam11906 296591003517 Ribokinase-like subgroup A. Found in bacteria and archaea, this subgroup is part of the ribokinase/pfkB superfamily. Its oligomerization state is unknown at this time; Region: ribokinase_group_A; cd01942 296591003518 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 296591003519 substrate binding site [chemical binding]; other site 296591003520 ATP binding site [chemical binding]; other site 296591003521 Uncharacterized ACR, YggU family COG1872; Region: DUF167; pfam02594 296591003522 Ribonucleotide Reductase, R2/beta subunit, ferritin-like diiron-binding domain; Region: RNRR2; cd01049 296591003523 dimer interface [polypeptide binding]; other site 296591003524 putative radical transfer pathway; other site 296591003525 diiron center [ion binding]; other site 296591003526 tyrosyl radical; other site 296591003527 ribonucleotide-diphosphate reductase subunit alpha; Validated; Region: PRK07207 296591003528 ATP cone domain; Region: ATP-cone; pfam03477 296591003529 ATP cone domain; Region: ATP-cone; pfam03477 296591003530 Class I ribonucleotide reductase; Region: RNR_I; cd01679 296591003531 active site 296591003532 dimer interface [polypeptide binding]; other site 296591003533 catalytic residues [active] 296591003534 effector binding site; other site 296591003535 R2 peptide binding site; other site 296591003536 N-acetyl-anhydromuramyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: ampD; COG3023 296591003537 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 296591003538 amidase catalytic site [active] 296591003539 Zn binding residues [ion binding]; other site 296591003540 substrate binding site [chemical binding]; other site 296591003541 Response regulator containing CheY-like receiver, AAA-type ATPase, and DNA-binding domains [Signal transduction mechanisms]; Region: AtoC; COG2204 296591003542 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 296591003543 active site 296591003544 phosphorylation site [posttranslational modification] 296591003545 intermolecular recognition site; other site 296591003546 dimerization interface [polypeptide binding]; other site 296591003547 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 296591003548 Walker A motif; other site 296591003549 ATP binding site [chemical binding]; other site 296591003550 Walker B motif; other site 296591003551 arginine finger; other site 296591003552 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 296591003553 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 296591003554 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 296591003555 dimer interface [polypeptide binding]; other site 296591003556 phosphorylation site [posttranslational modification] 296591003557 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 296591003558 ATP binding site [chemical binding]; other site 296591003559 Mg2+ binding site [ion binding]; other site 296591003560 G-X-G motif; other site 296591003561 Cytochrome C assembly protein; Region: Cytochrom_C_asm; cl00504 296591003562 signal recognition particle protein; Provisional; Region: PRK10867 296591003563 SRP54-type protein, helical bundle domain; Region: SRP54_N; smart00963 296591003564 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 296591003565 GTP binding site [chemical binding]; other site 296591003566 Signal peptide binding domain; Region: SRP_SPB; pfam02978 296591003567 Glycosyltransferases, probably involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: COG1215 296591003568 Glucan_BSP_ModH catalyzes the elongation of beta-1,2 polyglucose chains of glucan; Region: Glucan_BSP_ModH; cd04191 296591003569 Ligand binding site; other site 296591003570 DXD motif; other site 296591003571 glucan biosynthesis protein G; Provisional; Region: mdoG; PRK13274 296591003572 glucan biosynthesis protein D; Provisional; Region: mdoD; PRK13273 296591003573 response regulator GlrR; Provisional; Region: PRK15115 296591003574 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 296591003575 active site 296591003576 phosphorylation site [posttranslational modification] 296591003577 intermolecular recognition site; other site 296591003578 dimerization interface [polypeptide binding]; other site 296591003579 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 296591003580 Walker A motif; other site 296591003581 ATP binding site [chemical binding]; other site 296591003582 Walker B motif; other site 296591003583 arginine finger; other site 296591003584 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 296591003585 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 296591003586 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 296591003587 dimer interface [polypeptide binding]; other site 296591003588 phosphorylation site [posttranslational modification] 296591003589 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 296591003590 ATP binding site [chemical binding]; other site 296591003591 Mg2+ binding site [ion binding]; other site 296591003592 G-X-G motif; other site 296591003593 (dimethylallyl)adenosine tRNA methylthiotransferase; Provisional; Region: PRK14325 296591003594 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 296591003595 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 296591003596 FeS/SAM binding site; other site 296591003597 TRAM domain; Region: TRAM; pfam01938 296591003598 enoyl-CoA hydratase; Provisional; Region: PRK05862 296591003599 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 296591003600 substrate binding site [chemical binding]; other site 296591003601 oxyanion hole (OAH) forming residues; other site 296591003602 trimer interface [polypeptide binding]; other site 296591003603 Predicted protease with the C-terminal PDZ domain [General function prediction only]; Region: COG3975 296591003604 M61 glycyl aminopeptidase; Region: Peptidase_M61; pfam05299 296591003605 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; cl00117 296591003606 protein binding site [polypeptide binding]; other site 296591003607 protein disulfide isomerase II DsbC; Provisional; Region: PRK10877 296591003608 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 296591003609 dimerization domain [polypeptide binding]; other site 296591003610 dimer interface [polypeptide binding]; other site 296591003611 catalytic residues [active] 296591003612 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 296591003613 Uncharacterized Fe-S protein [General function prediction only]; Region: COG3217 296591003614 MOSC N-terminal beta barrel domain; Region: MOSC_N; pfam03476 296591003615 MOSC domain; Region: MOSC; pfam03473 296591003616 GTP-binding protein YchF; Reviewed; Region: PRK09601 296591003617 YchF GTPase; Region: YchF; cd01900 296591003618 G1 box; other site 296591003619 GTP/Mg2+ binding site [chemical binding]; other site 296591003620 Switch I region; other site 296591003621 G2 box; other site 296591003622 Switch II region; other site 296591003623 G3 box; other site 296591003624 G4 box; other site 296591003625 G5 box; other site 296591003626 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 296591003627 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 296591003628 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 296591003629 RNA binding surface [nucleotide binding]; other site 296591003630 Pseudouridine synthase, a subgroup of the RsuA family; Region: PSSA_1; cd02555 296591003631 active site 296591003632 Predicted membrane protein [Function unknown]; Region: COG1238 296591003633 putative TIM-barrel protein, nifR3 family; Region: nifR3_yhdG; TIGR00737 296591003634 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 296591003635 FMN binding site [chemical binding]; other site 296591003636 active site 296591003637 catalytic residues [active] 296591003638 substrate binding site [chemical binding]; other site 296591003639 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 296591003640 bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional; Region: purH; PRK00881 296591003641 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 296591003642 purine monophosphate binding site [chemical binding]; other site 296591003643 dimer interface [polypeptide binding]; other site 296591003644 putative catalytic residues [active] 296591003645 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; smart00798 296591003646 AICARFT/IMPCHase bienzyme; Region: AICARFT_IMPCHas; cl03362 296591003647 glutamate-1-semialdehyde aminotransferase; Provisional; Region: PRK00062 296591003648 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 296591003649 inhibitor-cofactor binding pocket; inhibition site 296591003650 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591003651 catalytic residue [active] 296591003652 ribokinase/pfkB superfamily: Kinases that accept a wide variety of substrates, including carbohydrates and aromatic small molecules, all are phosphorylated at a hydroxyl group. The superfamily includes ribokinase, fructokinase, ketohexokinase; Region: ribokinase_pfkB_like; cl00192 296591003653 substrate binding site [chemical binding]; other site 296591003654 ATP binding site [chemical binding]; other site 296591003655 Rubredoxin [Energy production and conversion]; Region: COG1773 296591003656 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 296591003657 iron binding site [ion binding]; other site 296591003658 Response regulator receiver domain; Region: Response_reg; pfam00072 296591003659 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 296591003660 active site 296591003661 phosphorylation site [posttranslational modification] 296591003662 intermolecular recognition site; other site 296591003663 dimerization interface [polypeptide binding]; other site 296591003664 Response regulator receiver domain; Region: Response_reg; pfam00072 296591003665 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 296591003666 active site 296591003667 phosphorylation site [posttranslational modification] 296591003668 intermolecular recognition site; other site 296591003669 dimerization interface [polypeptide binding]; other site 296591003670 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cd00588 296591003671 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 296591003672 Methyl-accepting chemotaxis-like domains (chemotaxis sensory transducer); Region: MA; smart00283 296591003673 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 296591003674 dimer interface [polypeptide binding]; other site 296591003675 putative CheW interface [polypeptide binding]; other site 296591003676 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 296591003677 putative binding surface; other site 296591003678 active site 296591003679 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 296591003680 putative binding surface; other site 296591003681 active site 296591003682 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 296591003683 putative binding surface; other site 296591003684 active site 296591003685 Signal transducing histidine kinase, homodimeric domain; Region: H-kinase_dim; pfam02895 296591003686 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 296591003687 ATP binding site [chemical binding]; other site 296591003688 G-X-G motif; other site 296591003689 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 296591003690 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 296591003691 Response regulator receiver domain; Region: Response_reg; pfam00072 296591003692 active site 296591003693 phosphorylation site [posttranslational modification] 296591003694 intermolecular recognition site; other site 296591003695 dimerization interface [polypeptide binding]; other site 296591003696 hypothetical protein; Validated; Region: PRK00228 296591003697 Holliday junction resolvase-like protein; Reviewed; Region: PRK00109 296591003698 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 296591003699 active site 296591003700 aspartate carbamoyltransferase catalytic subunit; Provisional; Region: pyrB; PRK00856 296591003701 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 296591003702 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 296591003703 dihydroorotase; Provisional; Region: PRK07627 296591003704 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 296591003705 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 296591003706 active site 296591003707 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 296591003708 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 296591003709 putative acyl-acceptor binding pocket; other site 296591003710 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 296591003711 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 296591003712 Walker A/P-loop; other site 296591003713 ATP binding site [chemical binding]; other site 296591003714 Q-loop/lid; other site 296591003715 ABC transporter signature motif; other site 296591003716 Walker B; other site 296591003717 D-loop; other site 296591003718 H-loop/switch region; other site 296591003719 TOBE domain; Region: TOBE_2; pfam08402 296591003720 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 296591003721 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 296591003722 dimer interface [polypeptide binding]; other site 296591003723 conserved gate region; other site 296591003724 ABC-ATPase subunit interface; other site 296591003725 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 296591003726 dimer interface [polypeptide binding]; other site 296591003727 conserved gate region; other site 296591003728 putative PBP binding loops; other site 296591003729 ABC-ATPase subunit interface; other site 296591003730 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 296591003731 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 296591003732 Transcriptional regulators [Transcription]; Region: MarR; COG1846 296591003733 MarR family; Region: MarR_2; pfam12802 296591003734 hypothetical protein; Provisional; Region: PRK10428 296591003735 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 296591003736 ATP-binding cassette domain of the osmoprotectant transporter; Region: ABC_OpuCA_Osmoprotection; cd03295 296591003737 Walker A/P-loop; other site 296591003738 ATP binding site [chemical binding]; other site 296591003739 Q-loop/lid; other site 296591003740 ABC transporter signature motif; other site 296591003741 Walker B; other site 296591003742 D-loop; other site 296591003743 H-loop/switch region; other site 296591003744 ABC-type proline/glycine betaine transport systems, permease component [Amino acid transport and metabolism]; Region: OpuBB; COG1174 296591003745 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 296591003746 dimer interface [polypeptide binding]; other site 296591003747 conserved gate region; other site 296591003748 ABC-ATPase subunit interface; other site 296591003749 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 296591003750 active sites [active] 296591003751 tetramer interface [polypeptide binding]; other site 296591003752 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 296591003753 ABC-type proline/glycine betaine transport systems, periplasmic components [Amino acid transport and metabolism]; Region: ProX; cl17891 296591003754 Predicted membrane protein [Function unknown]; Region: COG2855 296591003755 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 296591003756 active sites [active] 296591003757 tetramer interface [polypeptide binding]; other site 296591003758 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591003759 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 296591003760 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 296591003761 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 296591003762 urocanate hydratase; Provisional; Region: PRK05414 296591003763 histidine utilization repressor, proteobacterial; Region: his_ut_repres; TIGR02018 296591003764 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591003765 DNA-binding site [nucleotide binding]; DNA binding site 296591003766 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 296591003767 N-formylglutamate amidohydrolase; Region: FGase; cl01522 296591003768 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 296591003769 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 296591003770 active site 296591003771 phosphorylation site [posttranslational modification] 296591003772 intermolecular recognition site; other site 296591003773 dimerization interface [polypeptide binding]; other site 296591003774 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 296591003775 DNA binding residues [nucleotide binding] 296591003776 dimerization interface [polypeptide binding]; other site 296591003777 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 296591003778 Ligand Binding Site [chemical binding]; other site 296591003779 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 296591003780 Ligand Binding Site [chemical binding]; other site 296591003781 Response regulator receiver domain; Region: Response_reg; pfam00072 296591003782 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 296591003783 active site 296591003784 phosphorylation site [posttranslational modification] 296591003785 intermolecular recognition site; other site 296591003786 dimerization interface [polypeptide binding]; other site 296591003787 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 296591003788 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 296591003789 ligand binding site [chemical binding]; other site 296591003790 flexible hinge region; other site 296591003791 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 296591003792 putative switch regulator; other site 296591003793 non-specific DNA interactions [nucleotide binding]; other site 296591003794 DNA binding site [nucleotide binding] 296591003795 sequence specific DNA binding site [nucleotide binding]; other site 296591003796 putative cAMP binding site [chemical binding]; other site 296591003797 curved DNA-binding protein CbpA; Provisional; Region: PRK10266 296591003798 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 296591003799 HSP70 interaction site [polypeptide binding]; other site 296591003800 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 296591003801 substrate binding site [polypeptide binding]; other site 296591003802 DnaJ C terminal domain; Region: DnaJ_C; pfam01556 296591003803 chaperone-modulator protein CbpM; Provisional; Region: PRK10265 296591003804 MerR HTH family regulatory protein; Region: MerR_2; pfam13591 296591003805 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 296591003806 Short C-terminal domain; Region: SHOCT; pfam09851 296591003807 YHS domain; Region: YHS; pfam04945 296591003808 copper-(or silver)-translocating P-type ATPase; Region: ATPase-IB1_Cu; TIGR01511 296591003809 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 296591003810 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 296591003811 motif II; other site 296591003812 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 296591003813 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 296591003814 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 296591003815 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 296591003816 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 296591003817 Predicted membrane protein [Function unknown]; Region: COG3174 296591003818 Domain of unknown function (DUF4010); Region: DUF4010; pfam13194 296591003819 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 296591003820 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 296591003821 HlyD family secretion protein; Region: HlyD_3; pfam13437 296591003822 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 296591003823 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 296591003824 FtsX-like permease family; Region: FtsX; pfam02687 296591003825 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 296591003826 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 296591003827 Walker A/P-loop; other site 296591003828 ATP binding site [chemical binding]; other site 296591003829 Q-loop/lid; other site 296591003830 ABC transporter signature motif; other site 296591003831 Walker B; other site 296591003832 D-loop; other site 296591003833 H-loop/switch region; other site 296591003834 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; cl00959 296591003835 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 296591003836 Cysteine-rich domain; Region: CCG; pfam02754 296591003837 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 296591003838 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 296591003839 putative dimer interface [polypeptide binding]; other site 296591003840 putative active site [active] 296591003841 Protein of unknown function (DUF2892); Region: DUF2892; pfam11127 296591003842 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 296591003843 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; smart00831 296591003844 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 296591003845 Putative hydrolase of sodium-potassium ATPase alpha subunit; Region: Hydrolase_like2; pfam13246 296591003846 Soluble P-type ATPase [General function prediction only]; Region: COG4087 296591003847 Cation transporting ATPase, C-terminus; Region: Cation_ATPase_C; pfam00689 296591003848 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 296591003849 phosphoribosylpyrophosphate synthetase; Provisional; Region: PRK07199 296591003850 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 296591003851 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 296591003852 active site 296591003853 thymidine phosphorylase; Provisional; Region: PRK04350 296591003854 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 296591003855 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 296591003856 Pyrimidine nucleoside phosphorylase C-terminal domain; Region: PYNP_C; smart00941 296591003857 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2187 296591003858 Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates...; Region: NK; cl17190 296591003859 AAA domain; Region: AAA_33; pfam13671 296591003860 active site 296591003861 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 296591003862 Ligand Binding Site [chemical binding]; other site 296591003863 acetoacetyl-CoA reductase; Region: AcAcCoA_reduct; TIGR01829 296591003864 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 296591003865 NAD(P) binding site [chemical binding]; other site 296591003866 homotetramer interface [polypeptide binding]; other site 296591003867 homodimer interface [polypeptide binding]; other site 296591003868 active site 296591003869 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 296591003870 alpha-crystallin domain (ACD) found in alpha-crystallin-type small heat shock proteins, and a similar domain found in p23 (a cochaperone for Hsp90) and in other p23-like proteins; Region: alpha-crystallin-Hsps_p23-like; cl00175 296591003871 Predicted periplasmic or secreted lipoprotein [General function prediction only]; Region: OsmY; COG2823 296591003872 BON domain; Region: BON; pfam04972 296591003873 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 296591003874 Cinnamyl alcohol dehydrogenases (CAD); Region: CAD2; cd08298 296591003875 putative NAD(P) binding site [chemical binding]; other site 296591003876 putative substrate binding site [chemical binding]; other site 296591003877 catalytic Zn binding site [ion binding]; other site 296591003878 structural Zn binding site [ion binding]; other site 296591003879 Poly-beta-hydroxybutyrate polymerase N terminal; Region: PHBC_N; pfam12551 296591003880 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 296591003881 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 296591003882 DnaK suppressor protein [Signal transduction mechanisms]; Region: DksA; COG1734 296591003883 Acyl-CoA synthetase (NDP forming) [Energy production and conversion]; Region: COG1042 296591003884 CoA binding domain; Region: CoA_binding_2; pfam13380 296591003885 Succinyl-CoA ligase like flavodoxin domain; Region: Succ_CoA_lig; pfam13607 296591003886 ATP-grasp domain; Region: ATP-grasp_5; pfam13549 296591003887 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 296591003888 Ligand Binding Site [chemical binding]; other site 296591003889 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 296591003890 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 296591003891 ligand binding site [chemical binding]; other site 296591003892 flexible hinge region; other site 296591003893 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 296591003894 putative switch regulator; other site 296591003895 non-specific DNA interactions [nucleotide binding]; other site 296591003896 DNA binding site [nucleotide binding] 296591003897 sequence specific DNA binding site [nucleotide binding]; other site 296591003898 putative cAMP binding site [chemical binding]; other site 296591003899 coproporphyrinogen III oxidase; Provisional; Region: PRK09249 296591003900 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 296591003901 FeS/SAM binding site; other site 296591003902 HemN C-terminal domain; Region: HemN_C; pfam06969 296591003903 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]; Region: YSH1; COG1236 296591003904 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 296591003905 Beta-Casp domain; Region: Beta-Casp; smart01027 296591003906 RNA-metabolising metallo-beta-lactamase; Region: RMMBL; pfam07521 296591003907 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 296591003908 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 296591003909 Transposase; Region: DEDD_Tnp_IS110; pfam01548 296591003910 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 296591003911 DNA-directed RNA polymerase specialized sigma subunit, sigma24 homolog [Transcription]; Region: RpoE; COG1595 296591003912 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 296591003913 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 296591003914 DNA binding residues [nucleotide binding] 296591003915 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 296591003916 putative substrate translocation pore; other site 296591003917 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 296591003918 Family of unknown function (DUF490); Region: DUF490; pfam04357 296591003919 Outer membrane protein [Cell envelope biogenesis, outer membrane]; Region: COG0729 296591003920 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 296591003921 Surface antigen; Region: Bac_surface_Ag; pfam01103 296591003922 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3825 296591003923 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 296591003924 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 296591003925 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 296591003926 Walker A motif; other site 296591003927 ATP binding site [chemical binding]; other site 296591003928 Walker B motif; other site 296591003929 arginine finger; other site 296591003930 Cytochrome c553 [Energy production and conversion]; Region: COG2863 296591003931 Cytochrome c; Region: Cytochrom_C; cl11414 296591003932 putative transposase OrfB; Reviewed; Region: PHA02517 296591003933 Integrase core domain; Region: rve; pfam00665 296591003934 Integrase core domain; Region: rve_3; pfam13683 296591003935 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 296591003936 Domain of unknown function (DUF1841); Region: DUF1841; pfam08897 296591003937 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 296591003938 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 296591003939 Bacterial transcriptional regulator; Region: IclR; pfam01614 296591003940 Coenzyme A transferase; Region: CoA_trans; cl17247 296591003941 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 296591003942 beta-ketoadipyl CoA thiolase; Validated; Region: PRK09050 296591003943 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 296591003944 dimer interface [polypeptide binding]; other site 296591003945 active site 296591003946 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591003947 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591003948 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 296591003949 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 296591003950 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 296591003951 active site 296591003952 ATP binding site [chemical binding]; other site 296591003953 substrate binding site [chemical binding]; other site 296591003954 activation loop (A-loop); other site 296591003955 glutathione-regulated potassium-efflux system protein KefC; Provisional; Region: PRK03562 296591003956 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 296591003957 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 296591003958 TrkA-N domain; Region: TrkA_N; pfam02254 296591003959 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 296591003960 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 296591003961 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 296591003962 P-loop; other site 296591003963 Magnesium ion binding site [ion binding]; other site 296591003964 NodN (nodulation factor N) contains a single hot dog fold similar to those of the peroxisomal Hydratase-Dehydrogenase-Epimerase (HDE) protein, and the fatty acid synthase beta subunit. Rhizobium and related species form nodules on the roots of their...; Region: NodN; cd03450 296591003965 putative active site [active] 296591003966 putative catalytic site [active] 296591003967 Predicted rRNA methylase (SpoU class) [Translation, ribosomal structure and biogenesis]; Region: CspR; COG0219 296591003968 Predicted amidophosphoribosyltransferases [General function prediction only]; Region: ComFC; COG1040 296591003969 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 296591003970 active site 296591003971 biotin biosynthesis protein BioC; Region: BioC; TIGR02072 296591003972 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 296591003973 Integral membrane protein (DUF2244); Region: DUF2244; pfam10003 296591003974 cytochrome c oxidase subunit II; Provisional; Region: COX2; MTH00140 296591003975 Cytochrome C oxidase subunit II, transmembrane domain; Region: COX2_TM; pfam02790 296591003976 Cytochrome C oxidase subunit II, periplasmic domain; Region: COX2; pfam00116 296591003977 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 296591003978 Cytochrome c; Region: Cytochrom_C; pfam00034 296591003979 cytochrome c oxidase subunit I; Validated; Region: COX1; MTH00007 296591003980 Cytochrome C oxidase subunit I. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_I; cd01663 296591003981 Subunit I/III interface [polypeptide binding]; other site 296591003982 D-pathway; other site 296591003983 Subunit I/VIIc interface [polypeptide binding]; other site 296591003984 Subunit I/IV interface [polypeptide binding]; other site 296591003985 Subunit I/II interface [polypeptide binding]; other site 296591003986 Low-spin heme (heme a) binding site [chemical binding]; other site 296591003987 Subunit I/VIIa interface [polypeptide binding]; other site 296591003988 Subunit I/VIa interface [polypeptide binding]; other site 296591003989 Dimer interface; other site 296591003990 Putative water exit pathway; other site 296591003991 Binuclear center (heme a3/CuB) [ion binding]; other site 296591003992 K-pathway; other site 296591003993 Subunit I/Vb interface [polypeptide binding]; other site 296591003994 Putative proton exit pathway; other site 296591003995 Subunit I/VIb interface; other site 296591003996 Subunit I/VIc interface [polypeptide binding]; other site 296591003997 Electron transfer pathway; other site 296591003998 Subunit I/VIIIb interface [polypeptide binding]; other site 296591003999 Subunit I/VIIb interface [polypeptide binding]; other site 296591004000 cytochrome C oxidase assembly protein; Provisional; Region: PRK05089 296591004001 Protein of unknown function (DUF2970); Region: DUF2970; pfam11174 296591004002 Cytochrome c oxidase subunit III. Cytochrome c oxidase (CcO), the terminal oxidase in the respiratory chains of eukaryotes and most bacteria, is a multi-chain transmembrane protein located in the inner membrane of mitochondria and the cell membrane of...; Region: Cyt_c_Oxidase_III; cd01665 296591004003 Subunit III/VIIa interface [polypeptide binding]; other site 296591004004 Phospholipid binding site [chemical binding]; other site 296591004005 Subunit I/III interface [polypeptide binding]; other site 296591004006 Subunit III/VIb interface [polypeptide binding]; other site 296591004007 Subunit III/VIa interface; other site 296591004008 Subunit III/Vb interface [polypeptide binding]; other site 296591004009 Protein of unknown function (DUF2909); Region: DUF2909; pfam11137 296591004010 SURF1 superfamily. Surf1/Shy1 has been implicated in the posttranslational steps of the biogenesis of the mitochondrially-encoded Cox1 subunit of cytochrome c oxidase (complex IV). Cytochrome c oxidase (complex IV), the terminal electron-transferring...; Region: SURF1; cd06662 296591004011 Cytochrome oxidase assembly protein; Region: COX15-CtaA; pfam02628 296591004012 Uncharacterized protein required for cytochrome oxidase assembly [Posttranslational modification, protein turnover, chaperones]; Region: CtaA; COG1612 296591004013 protoheme IX farnesyltransferase; Provisional; Region: PRK04375 296591004014 UbiA prenyltransferase family; Region: UbiA; pfam01040 296591004015 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 296591004016 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 296591004017 Cu(I) binding site [ion binding]; other site 296591004018 RNA polymerase factor sigma-32; Reviewed; Region: PRK06596 296591004019 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 296591004020 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 296591004021 DNA binding residues [nucleotide binding] 296591004022 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 296591004023 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 296591004024 Walker A/P-loop; other site 296591004025 ATP binding site [chemical binding]; other site 296591004026 Q-loop/lid; other site 296591004027 ABC transporter signature motif; other site 296591004028 Walker B; other site 296591004029 D-loop; other site 296591004030 H-loop/switch region; other site 296591004031 TOBE domain; Region: TOBE_2; pfam08402 296591004032 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 296591004033 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 296591004034 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 296591004035 dimer interface [polypeptide binding]; other site 296591004036 conserved gate region; other site 296591004037 putative PBP binding loops; other site 296591004038 ABC-ATPase subunit interface; other site 296591004039 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 296591004040 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 296591004041 dimer interface [polypeptide binding]; other site 296591004042 conserved gate region; other site 296591004043 putative PBP binding loops; other site 296591004044 ABC-ATPase subunit interface; other site 296591004045 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 296591004046 Cu(I) binding site [ion binding]; other site 296591004047 Cytochrome c; Region: Cytochrom_C; pfam00034 296591004048 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 296591004049 Cytochrome C oxidase, mono-heme subunit/FixO; Region: FixO; cl01130 296591004050 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 296591004051 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 296591004052 Low-spin heme binding site [chemical binding]; other site 296591004053 Putative water exit pathway; other site 296591004054 Binuclear center (active site) [active] 296591004055 Putative proton exit pathway; other site 296591004056 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 296591004057 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 296591004058 dimerization interface [polypeptide binding]; other site 296591004059 NAD binding site [chemical binding]; other site 296591004060 ligand binding site [chemical binding]; other site 296591004061 catalytic site [active] 296591004062 Uncharacterized protein involved in propionate catabolism [General function prediction only]; Region: PrpD; COG2079 296591004063 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591004064 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 296591004065 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591004066 DNA-binding site [nucleotide binding]; DNA binding site 296591004067 FCD domain; Region: FCD; pfam07729 296591004068 Protein of unknown function (DUF962); Region: DUF962; cl01879 296591004069 GYD domain; Region: GYD; pfam08734 296591004070 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 296591004071 signal recognition particle-docking protein FtsY; Provisional; Region: PRK10416 296591004072 SRP54-type protein, helical bundle domain; Region: SRP54_N; pfam02881 296591004073 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 296591004074 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 296591004075 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 296591004076 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 296591004077 Predicted Zn-dependent peptidases [General function prediction only]; Region: PqqL; COG0612 296591004078 Insulinase (Peptidase family M16); Region: Peptidase_M16; pfam00675 296591004079 Peptidase M16 inactive domain; Region: Peptidase_M16_C; pfam05193 296591004080 N6-adenine-specific methylase [DNA replication, recombination, and repair]; Region: COG0742 296591004081 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 296591004082 S-adenosylmethionine binding site [chemical binding]; other site 296591004083 phosphopantetheine adenylyltransferase; Provisional; Region: coaD; PRK00168 296591004084 Phosphopantetheine adenylyltransferase; Region: PPAT; cd02163 296591004085 active site 296591004086 (T/H)XGH motif; other site 296591004087 4Fe-4S dicluster domain; Region: Fer4_7; pfam12838 296591004088 Transcriptional regulators [Transcription]; Region: FadR; COG2186 296591004089 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591004090 DNA-binding site [nucleotide binding]; DNA binding site 296591004091 Sugar (pentulose and hexulose) kinases [Carbohydrate transport and metabolism]; Region: XylB; COG1070 296591004092 uncharacterized xylulose kinase-like proteins; a subgroup of the FGGY family of carbohydrate kinases; Region: FGGY_XK_like_1; cd07804 296591004093 N- and C-terminal domain interface [polypeptide binding]; other site 296591004094 putative active site [active] 296591004095 MgATP binding site [chemical binding]; other site 296591004096 catalytic site [active] 296591004097 metal binding site [ion binding]; metal-binding site 296591004098 putative xylulose binding site [chemical binding]; other site 296591004099 putative homodimer interface [polypeptide binding]; other site 296591004100 L-iditol 2-dehydrogenase; Region: iditol_2_DH_like; cd08235 296591004101 Threonine dehydrogenase and related Zn-dependent dehydrogenases [Amino acid transport and metabolism / General function prediction only]; Region: Tdh; COG1063 296591004102 putative NAD(P) binding site [chemical binding]; other site 296591004103 catalytic Zn binding site [ion binding]; other site 296591004104 Class I fructose-1,6-bisphosphate (FBP) aldolases of the archaeal type (DhnA homologs); Region: DhnA; cd00958 296591004105 putative active site; other site 296591004106 catalytic residue [active] 296591004107 DctM-like transporters; Region: DctM; pfam06808 296591004108 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 296591004109 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 296591004110 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 296591004111 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 296591004112 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 296591004113 putative active site [active] 296591004114 catalytic residue [active] 296591004115 Ribosomal L25/TL5/CTC N-terminal 5S rRNA binding domain; Region: Ribosomal_L25_TL5_CTC; cd00495 296591004116 ribosomal protein L25, Ctc-form; Region: ctc_TL5; TIGR00731 296591004117 5S rRNA interface [nucleotide binding]; other site 296591004118 CTC domain interface [polypeptide binding]; other site 296591004119 L16 interface [polypeptide binding]; other site 296591004120 ribose-phosphate pyrophosphokinase; Provisional; Region: PRK01259 296591004121 N-terminal domain of ribose phosphate pyrophosphokinase; Region: Pribosyltran_N; pfam13793 296591004122 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 296591004123 active site 296591004124 4-diphosphocytidyl-2-C-methyl-D-erythritol kinase; Provisional; Region: ipk; PRK00343 296591004125 GHMP kinases N terminal domain; Region: GHMP_kinases_N; pfam00288 296591004126 outer membrane lipoprotein LolB; Provisional; Region: lolB; PRK00022 296591004127 Outer membrane lipoprotein LolB; Region: LolB; pfam03550 296591004128 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 296591004129 binding surface 296591004130 TPR motif; other site 296591004131 TPR repeat; Region: TPR_11; pfam13414 296591004132 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 296591004133 binding surface 296591004134 TPR motif; other site 296591004135 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated; Region: PRK01103 296591004136 N-terminal domain of Fpg (formamidopyrimidine-DNA glycosylase, MutM)_Nei (endonuclease VIII) base-excision repair DNA glycosylases; Region: FpgNei_N; cl03119 296591004137 DNA binding site [nucleotide binding] 296591004138 catalytic residue [active] 296591004139 H2TH interface [polypeptide binding]; other site 296591004140 putative catalytic residues [active] 296591004141 Formamidopyrimidine-DNA glycosylase H2TH domain; Region: H2TH; pfam06831 296591004142 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 296591004143 Dynamin family; Region: Dynamin_N; pfam00350 296591004144 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 296591004145 G1 box; other site 296591004146 GTP/Mg2+ binding site [chemical binding]; other site 296591004147 G2 box; other site 296591004148 Switch I region; other site 296591004149 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 296591004150 G3 box; other site 296591004151 Switch II region; other site 296591004152 GTP/Mg2+ binding site [chemical binding]; other site 296591004153 G4 box; other site 296591004154 G5 box; other site 296591004155 A/G-specific DNA glycosylase [DNA replication, recombination, and repair]; Region: MutY; COG1194 296591004156 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 296591004157 minor groove reading motif; other site 296591004158 helix-hairpin-helix signature motif; other site 296591004159 substrate binding pocket [chemical binding]; other site 296591004160 active site 296591004161 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 296591004162 DNA binding and oxoG recognition site [nucleotide binding] 296591004163 glmZ(sRNA)-inactivating NTPase; Provisional; Region: PRK05416 296591004164 ATPase involved in DNA repair [DNA replication, recombination, and repair]; Region: RecN; COG0497 296591004165 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 296591004166 Walker A/P-loop; other site 296591004167 ATP binding site [chemical binding]; other site 296591004168 Q-loop/lid; other site 296591004169 ATP-binding cassette domain of RecN; Region: ABC_RecN; cd03241 296591004170 ABC transporter signature motif; other site 296591004171 Walker B; other site 296591004172 D-loop; other site 296591004173 H-loop/switch region; other site 296591004174 NAD(+)/NADH kinase family protein; Provisional; Region: ppnK; PRK02155 296591004175 inorganic polyphosphate/ATP-NAD kinase; Provisional; Region: ppnK; PRK02231 296591004176 heat-inducible transcription repressor; Provisional; Region: hrcA; PRK00082 296591004177 Winged helix-turn-helix transcription repressor, HrcA DNA-binding; Region: HrcA_DNA-bdg; pfam03444 296591004178 DnaJ-class molecular chaperone with C-terminal Zn finger domain [Posttranslational modification, protein turnover, chaperones]; Region: DnaJ; COG0484 296591004179 Prim_Pol: Primase-polymerase (primpol) domain of the type found in bifunctional replicases from archaeal plasmids, including ORF904 protein of the crenarchaeal plasmid pRN1 from Sulfolobus islandicus (pRN1 primpol). These primpol domains belong to the...; Region: Prim_Pol; cd04859 296591004180 polymerase nucleotide-binding site; other site 296591004181 DNA-binding residues [nucleotide binding]; DNA binding site 296591004182 nucleotide binding site [chemical binding]; other site 296591004183 primase nucleotide-binding site [nucleotide binding]; other site 296591004184 D5 N terminal like; Region: D5_N; pfam08706 296591004185 phage/plasmid primase, P4 family, C-terminal domain; Region: primase_Cterm; TIGR01613 296591004186 Helix-turn-helix domain; Region: HTH_17; cl17695 296591004187 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 296591004188 active site 296591004189 DNA binding site [nucleotide binding] 296591004190 Int/Topo IB signature motif; other site 296591004191 Type II secretion system (T2SS), protein G; Region: T2SG; pfam08334 296591004192 type II secretion system protein H; Region: typeII_sec_gspH; TIGR01708 296591004193 Type II secretion system (T2SS), protein I; Region: T2SI; pfam02501 296591004194 Type IV pilin N-term methylation site GFxxxE; Region: N_methyl_2; pfam13544 296591004195 Verru_Chthon cassette protein D; Region: TIGR02596 296591004196 Type II secretion system (T2SS), protein K; Region: T2SK; pfam03934 296591004197 Type II secretion system (T2SS), protein M; Region: T2SM; cl01222 296591004198 type II secretion system protein D; Region: type_II_gspD; TIGR02517 296591004199 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 296591004200 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 296591004201 Bacterial type II/III secretion system short domain; Region: Secretin_N; pfam03958 296591004202 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 296591004203 type II secretion system protein E; Region: type_II_gspE; TIGR02533 296591004204 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 296591004205 Walker A motif; other site 296591004206 ATP binding site [chemical binding]; other site 296591004207 Walker B motif; other site 296591004208 type II secretion system protein F; Region: GspF; TIGR02120 296591004209 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 296591004210 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 296591004211 transcription elongation factor GreB; Reviewed; Region: greB; PRK01885 296591004212 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 296591004213 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 296591004214 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 296591004215 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 296591004216 Zn2+ binding site [ion binding]; other site 296591004217 Mg2+ binding site [ion binding]; other site 296591004218 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 296591004219 synthetase active site [active] 296591004220 NTP binding site [chemical binding]; other site 296591004221 metal binding site [ion binding]; metal-binding site 296591004222 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 296591004223 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 296591004224 DNA-directed RNA polymerase subunit omega; Reviewed; Region: rpoZ; PRK00392 296591004225 Guanylate kinase [Nucleotide transport and metabolism]; Region: Gmk; COG0194 296591004226 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 296591004227 catalytic site [active] 296591004228 G-X2-G-X-G-K; other site 296591004229 hypothetical protein; Provisional; Region: PRK11820 296591004230 YicC-like family, N-terminal region; Region: YicC_N; pfam03755 296591004231 Domain of unknown function (DUF1732); Region: DUF1732; pfam08340 296591004232 Serine/Threonine protein kinases, catalytic domain; Region: S_TKc; smart00220 296591004233 Catalytic domain of Protein Kinases; Region: PKc; cd00180 296591004234 active site 296591004235 ATP binding site [chemical binding]; other site 296591004236 substrate binding site [chemical binding]; other site 296591004237 activation loop (A-loop); other site 296591004238 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 296591004239 Protein phosphatase 2C; Region: PP2C; pfam00481 296591004240 active site 296591004241 ribonuclease PH; Reviewed; Region: rph; PRK00173 296591004242 Ribonuclease PH; Region: RNase_PH_bact; cd11362 296591004243 hexamer interface [polypeptide binding]; other site 296591004244 active site 296591004245 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 296591004246 active site 296591004247 dimerization interface [polypeptide binding]; other site 296591004248 coproporphyrinogen III oxidase; Provisional; Region: PRK08898 296591004249 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 296591004250 FeS/SAM binding site; other site 296591004251 Peptidase inhibitor I78 family; Region: Inhibitor_I78; pfam11720 296591004252 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 296591004253 Urease accessory protein UreF [Posttranslational modification, protein turnover, chaperones]; Region: UreF; COG0830 296591004254 UreF; Region: UreF; pfam01730 296591004255 urease accessory protein UreE; Provisional; Region: ureE; PRK13263 296591004256 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 296591004257 dimer interface [polypeptide binding]; other site 296591004258 catalytic residues [active] 296591004259 urease subunit alpha; Reviewed; Region: ureC; PRK13207 296591004260 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 296591004261 subunit interactions [polypeptide binding]; other site 296591004262 active site 296591004263 flap region; other site 296591004264 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 296591004265 gamma-beta subunit interface [polypeptide binding]; other site 296591004266 alpha-beta subunit interface [polypeptide binding]; other site 296591004267 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 296591004268 alpha-gamma subunit interface [polypeptide binding]; other site 296591004269 beta-gamma subunit interface [polypeptide binding]; other site 296591004270 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 296591004271 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 296591004272 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 296591004273 dimer interface [polypeptide binding]; other site 296591004274 phosphorylation site [posttranslational modification] 296591004275 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 296591004276 ATP binding site [chemical binding]; other site 296591004277 Mg2+ binding site [ion binding]; other site 296591004278 G-X-G motif; other site 296591004279 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 296591004280 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 296591004281 active site 296591004282 phosphorylation site [posttranslational modification] 296591004283 intermolecular recognition site; other site 296591004284 dimerization interface [polypeptide binding]; other site 296591004285 Response regulator receiver domain; Region: Response_reg; pfam00072 296591004286 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 296591004287 active site 296591004288 phosphorylation site [posttranslational modification] 296591004289 intermolecular recognition site; other site 296591004290 dimerization interface [polypeptide binding]; other site 296591004291 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 296591004292 DNA binding residues [nucleotide binding] 296591004293 dimerization interface [polypeptide binding]; other site 296591004294 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 296591004295 rRNA binding site [nucleotide binding]; other site 296591004296 predicted 30S ribosome binding site; other site 296591004297 Protein of unknown function (DUF502); Region: DUF502; pfam04367 296591004298 Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]; Region: DinG; COG1199 296591004299 DEAD_2; Region: DEAD_2; pfam06733 296591004300 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 296591004301 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 296591004302 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 296591004303 GlpE sulfurtransferase (ST) and homologs are members of the Rhodanese Homology Domain superfamily. Unlike other rhodanese sulfurtransferases, GlpE is a single domain protein but indications are that it functions as a dimer. The active site contains a...; Region: GlpE_ST; cd01444 296591004304 active site residue [active] 296591004305 EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to...; Region: EFh; cd00051 296591004306 EF-hand domain pair; Region: EF_hand_5; pfam13499 296591004307 Ca2+ binding site [ion binding]; other site 296591004308 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 296591004309 putative catalytic site [active] 296591004310 putative metal binding site [ion binding]; other site 296591004311 putative phosphate binding site [ion binding]; other site 296591004312 Exonuclease-Endonuclease-Phosphatase (EEP) domain superfamily; Region: EEP; cl00490 296591004313 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 296591004314 dimerization interface [polypeptide binding]; other site 296591004315 putative DNA binding site [nucleotide binding]; other site 296591004316 putative Zn2+ binding site [ion binding]; other site 296591004317 Putative hydrophobic ligand-binding SRPBCC domain of Micromonospora echinospora CalC, human Aha1, and related proteins; Region: SRPBCC_CalC_Aha1-like; cd07814 296591004318 putative hydrophobic ligand binding site [chemical binding]; other site 296591004319 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 296591004320 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 296591004321 active site 296591004322 Bacterial protein of unknown function (DUF899); Region: DUF899; pfam05988 296591004323 methyl viologen resistance protein SmvA; Provisional; Region: PRK14995 296591004324 Response regulator receiver domain; Region: Response_reg; pfam00072 296591004325 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 296591004326 active site 296591004327 phosphorylation site [posttranslational modification] 296591004328 intermolecular recognition site; other site 296591004329 dimerization interface [polypeptide binding]; other site 296591004330 hypothetical protein; Provisional; Region: PRK06486 296591004331 active site 296591004332 intersubunit interface [polypeptide binding]; other site 296591004333 Zn2+ binding site [ion binding]; other site 296591004334 SlyX; Region: SlyX; pfam04102 296591004335 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 296591004336 redox-sensitive transcriptional activator SoxR; Region: SoxR; TIGR01950 296591004337 DNA binding residues [nucleotide binding] 296591004338 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 296591004339 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 296591004340 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 296591004341 C-terminal domain interface [polypeptide binding]; other site 296591004342 GSH binding site (G-site) [chemical binding]; other site 296591004343 dimer interface [polypeptide binding]; other site 296591004344 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 296591004345 dimer interface [polypeptide binding]; other site 296591004346 N-terminal domain interface [polypeptide binding]; other site 296591004347 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 296591004348 active site residue [active] 296591004349 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 296591004350 active site residue [active] 296591004351 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 296591004352 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 296591004353 DNA binding residues [nucleotide binding] 296591004354 dimerization interface [polypeptide binding]; other site 296591004355 Predicted protein tyrosine phosphatase [General function prediction only]; Region: COG4551 296591004356 active site 296591004357 Uncharacterized conserved protein [Function unknown]; Region: COG5649 296591004358 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 296591004359 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 296591004360 Transposase; Region: DEDD_Tnp_IS110; pfam01548 296591004361 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 296591004362 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 296591004363 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 296591004364 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 296591004365 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 296591004366 Amidase; Region: Amidase; pfam01425 296591004367 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 296591004368 dimer interface [polypeptide binding]; other site 296591004369 ABC-ATPase subunit interface; other site 296591004370 putative PBP binding loops; other site 296591004371 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 296591004372 dimer interface [polypeptide binding]; other site 296591004373 conserved gate region; other site 296591004374 putative PBP binding loops; other site 296591004375 ABC-ATPase subunit interface; other site 296591004376 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 296591004377 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 296591004378 Walker A/P-loop; other site 296591004379 ATP binding site [chemical binding]; other site 296591004380 Q-loop/lid; other site 296591004381 ABC transporter signature motif; other site 296591004382 Walker B; other site 296591004383 D-loop; other site 296591004384 H-loop/switch region; other site 296591004385 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 296591004386 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 296591004387 substrate binding pocket [chemical binding]; other site 296591004388 membrane-bound complex binding site; other site 296591004389 hinge residues; other site 296591004390 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain [Transcription]; Region: COG4977 296591004391 AraC transcriptional regulators having an N-terminal Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_ArgR_like; cd03136 296591004392 conserved cys residue [active] 296591004393 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 296591004394 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 296591004395 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 296591004396 Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF); Region: PBP1_FmdD_like; cd06355 296591004397 putative ligand binding site [chemical binding]; other site 296591004398 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 296591004399 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 296591004400 TM-ABC transporter signature motif; other site 296591004401 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 296591004402 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 296591004403 TM-ABC transporter signature motif; other site 296591004404 urea ABC transporter, ATP-binding protein UrtD; Region: urea_trans_UrtD; TIGR03411 296591004405 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 296591004406 Walker A/P-loop; other site 296591004407 ATP binding site [chemical binding]; other site 296591004408 Q-loop/lid; other site 296591004409 ABC transporter signature motif; other site 296591004410 Walker B; other site 296591004411 D-loop; other site 296591004412 H-loop/switch region; other site 296591004413 urea ABC transporter, ATP-binding protein UrtE; Region: urea_trans_UrtE; TIGR03410 296591004414 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 296591004415 Walker A/P-loop; other site 296591004416 ATP binding site [chemical binding]; other site 296591004417 Q-loop/lid; other site 296591004418 ABC transporter signature motif; other site 296591004419 Walker B; other site 296591004420 D-loop; other site 296591004421 H-loop/switch region; other site 296591004422 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 296591004423 dimer interface [polypeptide binding]; other site 296591004424 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 296591004425 Ferritin-like domain; Region: Ferritin; pfam00210 296591004426 dinuclear metal binding motif [ion binding]; other site 296591004427 Cupin domain; Region: Cupin_2; cl17218 296591004428 Ureidoglycolate hydrolase [Nucleotide transport and metabolism]; Region: DAL3; COG3194 296591004429 Ureidoglycolate hydrolase; Region: Ureidogly_hydro; pfam04115 296591004430 ribonuclease Z; Provisional; Region: PRK02126 296591004431 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591004432 NAD(P) binding site [chemical binding]; other site 296591004433 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 296591004434 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 296591004435 Bacterial transcriptional activator domain; Region: BTAD; pfam03704 296591004436 AAA ATPase domain; Region: AAA_16; pfam13191 296591004437 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 296591004438 FAD binding domain; Region: FAD_binding_4; pfam01565 296591004439 Berberine and berberine like; Region: BBE; pfam08031 296591004440 Protein of unknown function (DUF1326); Region: DUF1326; pfam07040 296591004441 Predicted metal-binding integral membrane protein [Function unknown]; Region: COG5486 296591004442 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 296591004443 aminotransferase; Validated; Region: PRK08175 296591004444 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 296591004445 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591004446 homodimer interface [polypeptide binding]; other site 296591004447 catalytic residue [active] 296591004448 Sodium/hydrogen exchanger family; Region: Na_H_Exchanger; pfam00999 296591004449 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 296591004450 UreD urease accessory protein; Region: UreD; pfam01774 296591004451 cyanophycin synthetase; Provisional; Region: PRK14016 296591004452 ATP-grasp domain; Region: ATP-grasp_4; cl17255 296591004453 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 296591004454 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 296591004455 cyanophycin synthetase; Provisional; Region: PRK14016 296591004456 ATP-grasp domain; Region: ATP-grasp_4; cl17255 296591004457 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 296591004458 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 296591004459 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 296591004460 Walker A/P-loop; other site 296591004461 ATP binding site [chemical binding]; other site 296591004462 Q-loop/lid; other site 296591004463 ABC transporter signature motif; other site 296591004464 Walker B; other site 296591004465 D-loop; other site 296591004466 H-loop/switch region; other site 296591004467 Domain of unknown function (DUF1854); Region: DUF1854; pfam08909 296591004468 Transcriptional regulators [Transcription]; Region: FadR; COG2186 296591004469 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591004470 DNA-binding site [nucleotide binding]; DNA binding site 296591004471 FCD domain; Region: FCD; pfam07729 296591004472 C4-dicarboxylate transporter DctA; Reviewed; Region: PRK13027 296591004473 Na+/H+-dicarboxylate symporters [Energy production and conversion]; Region: GltP; COG1301 296591004474 bifunctional malic enzyme oxidoreductase/phosphotransacetylase; Reviewed; Region: PRK07232 296591004475 Malic enzyme, N-terminal domain; Region: malic; pfam00390 296591004476 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 296591004477 putative NAD(P) binding site [chemical binding]; other site 296591004478 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 296591004479 M20 Zn-peptidases include exopeptidases; Region: M20_like; cd02697 296591004480 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK08651 296591004481 putative metal binding site [ion binding]; other site 296591004482 putative bifunctional OHCU decarboxylase/allantoate amidohydrolase; Provisional; Region: PRK13590 296591004483 OHCU decarboxylase; Region: OHCU_decarbox; pfam09349 296591004484 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 296591004485 active site 296591004486 metal binding site [ion binding]; metal-binding site 296591004487 dimer interface [polypeptide binding]; other site 296591004488 putative urate catabolism protein; Region: uraD_N-term-dom; TIGR03212 296591004489 Catalytic domain of bacterial PuuE allantoinases, Schizosaccharomyces pombe chitin deacetylase 1 (SpCDA1), and similar proteins; Region: CE4_PuuE_SpCDA1; cd10977 296591004490 active site 296591004491 catalytic site [active] 296591004492 tetramer interface [polypeptide binding]; other site 296591004493 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 296591004494 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591004495 DNA-binding site [nucleotide binding]; DNA binding site 296591004496 FCD domain; Region: FCD; pfam07729 296591004497 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 296591004498 active site 296591004499 homotetramer interface [polypeptide binding]; other site 296591004500 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591004501 XdhC and CoxI family; Region: XdhC_CoxI; pfam02625 296591004502 xanthine dehydrogenase accessory protein XdhC; Region: xanthine_xdhC; TIGR02964 296591004503 XdhC Rossmann domain; Region: XdhC_C; pfam13478 296591004504 Predicted membrane protein [Function unknown]; Region: COG3748 296591004505 Protein of unknown function (DUF989); Region: DUF989; pfam06181 296591004506 Cytochrome c; Region: Cytochrom_C; pfam00034 296591004507 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 296591004508 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 296591004509 putative ligand binding site [chemical binding]; other site 296591004510 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 296591004511 tartrate dehydrogenase; Region: TTC; TIGR02089 296591004512 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591004513 Putative glycerate kinase [Carbohydrate transport and metabolism]; Region: GckA; COG2379 296591004514 Domain of unknown function (DUF4147); Region: DUF4147; pfam13660 296591004515 MOFRL family; Region: MOFRL; pfam05161 296591004516 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 296591004517 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 296591004518 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 296591004519 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 296591004520 Walker A/P-loop; other site 296591004521 ATP binding site [chemical binding]; other site 296591004522 Q-loop/lid; other site 296591004523 ABC transporter signature motif; other site 296591004524 Walker B; other site 296591004525 D-loop; other site 296591004526 H-loop/switch region; other site 296591004527 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 296591004528 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 296591004529 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 296591004530 dimer interface [polypeptide binding]; other site 296591004531 conserved gate region; other site 296591004532 putative PBP binding loops; other site 296591004533 ABC-ATPase subunit interface; other site 296591004534 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 296591004535 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 296591004536 substrate binding pocket [chemical binding]; other site 296591004537 membrane-bound complex binding site; other site 296591004538 hinge residues; other site 296591004539 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 296591004540 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 296591004541 non-specific DNA binding site [nucleotide binding]; other site 296591004542 salt bridge; other site 296591004543 sequence-specific DNA binding site [nucleotide binding]; other site 296591004544 Cupin domain; Region: Cupin_2; pfam07883 296591004545 Acyl-coenzyme A:6-aminopenicillanic acid acyl-transferase; Region: AAT; pfam03417 296591004546 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 296591004547 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_16; cd08502 296591004548 ATPase components of various ABC-type transport systems, contain duplicated ATPase [General function prediction only]; Region: COG1123 296591004549 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 296591004550 Walker A/P-loop; other site 296591004551 ATP binding site [chemical binding]; other site 296591004552 Q-loop/lid; other site 296591004553 ABC transporter signature motif; other site 296591004554 Walker B; other site 296591004555 D-loop; other site 296591004556 H-loop/switch region; other site 296591004557 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 296591004558 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 296591004559 Walker A/P-loop; other site 296591004560 ATP binding site [chemical binding]; other site 296591004561 Q-loop/lid; other site 296591004562 ABC transporter signature motif; other site 296591004563 Walker B; other site 296591004564 D-loop; other site 296591004565 H-loop/switch region; other site 296591004566 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 296591004567 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 296591004568 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 296591004569 dimer interface [polypeptide binding]; other site 296591004570 conserved gate region; other site 296591004571 putative PBP binding loops; other site 296591004572 ABC-ATPase subunit interface; other site 296591004573 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 296591004574 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 296591004575 dimer interface [polypeptide binding]; other site 296591004576 conserved gate region; other site 296591004577 putative PBP binding loops; other site 296591004578 ABC-ATPase subunit interface; other site 296591004579 Poly(3-hydroxybutyrate) depolymerase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: LpqC; COG3509 296591004580 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591004581 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591004582 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 296591004583 dimerization interface [polypeptide binding]; other site 296591004584 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591004585 transcriptional regulatory protein TctD; Provisional; Region: PRK15479 296591004586 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 296591004587 active site 296591004588 phosphorylation site [posttranslational modification] 296591004589 intermolecular recognition site; other site 296591004590 dimerization interface [polypeptide binding]; other site 296591004591 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 296591004592 DNA binding site [nucleotide binding] 296591004593 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 296591004594 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 296591004595 dimer interface [polypeptide binding]; other site 296591004596 phosphorylation site [posttranslational modification] 296591004597 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 296591004598 ATP binding site [chemical binding]; other site 296591004599 Mg2+ binding site [ion binding]; other site 296591004600 G-X-G motif; other site 296591004601 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591004602 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 296591004603 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591004604 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 296591004605 dimerization interface [polypeptide binding]; other site 296591004606 substrate binding pocket [chemical binding]; other site 296591004607 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 296591004608 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591004609 NAD(P) binding site [chemical binding]; other site 296591004610 active site 296591004611 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 296591004612 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 296591004613 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 296591004614 DctM-like transporters; Region: DctM; pfam06808 296591004615 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 296591004616 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 296591004617 dihydroxyacetone kinase; Provisional; Region: PRK14479 296591004618 dihydroxyacetone kinase subunit DhaK; Provisional; Region: PRK14481; cl10557 296591004619 DAK2 domain; Region: Dak2; pfam02734 296591004620 ribose-5-phosphate isomerase B; Provisional; Region: PRK05571 296591004621 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 296591004622 TPP-binding site [chemical binding]; other site 296591004623 dimer interface [polypeptide binding]; other site 296591004624 Transketolase, C-terminal subunit [Carbohydrate transport and metabolism]; Region: COG3958 296591004625 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 296591004626 PYR/PP interface [polypeptide binding]; other site 296591004627 dimer interface [polypeptide binding]; other site 296591004628 TPP binding site [chemical binding]; other site 296591004629 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 296591004630 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 296591004631 Glycerophosphodiester phosphodiesterase domain of putative Silicibacter pomeroyi glycerophosphodiester phosphodiesterase and similar proteins; Region: GDPD_SpGDE_like; cd08567 296591004632 Glycerophosphoryl diester phosphodiesterase [Energy production and conversion]; Region: UgpQ; COG0584 296591004633 active site 296591004634 catalytic site [active] 296591004635 metal binding site [ion binding]; metal-binding site 296591004636 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 296591004637 Amidase; Region: Amidase; pfam01425 296591004638 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591004639 Glutamate-1-semialdehyde aminotransferase [Coenzyme metabolism]; Region: HemL; COG0001 296591004640 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 296591004641 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 296591004642 catalytic residue [active] 296591004643 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 296591004644 hydroxyglutarate oxidase; Provisional; Region: PRK11728 296591004645 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 296591004646 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 296591004647 non-specific DNA binding site [nucleotide binding]; other site 296591004648 salt bridge; other site 296591004649 sequence-specific DNA binding site [nucleotide binding]; other site 296591004650 Cupin domain; Region: Cupin_2; pfam07883 296591004651 Sigma54-dependent transcription regulator containing an AAA-type ATPase domain and a DNA-binding domain [Transcription / Signal transduction mechanisms]; Region: RtcR; COG4650 296591004652 Regulator of RNA terminal phosphate cyclase; Region: RtcR; pfam06956 296591004653 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 296591004654 Walker A motif; other site 296591004655 ATP binding site [chemical binding]; other site 296591004656 Walker B motif; other site 296591004657 arginine finger; other site 296591004658 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 296591004659 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 296591004660 Uncharacterized protein family UPF0027; Region: UPF0027; pfam01139 296591004661 hypothetical protein; Reviewed; Region: PRK09588 296591004662 RNA 3'-terminal-phosphate cyclase; Provisional; Region: PRK04204 296591004663 This domain family includes the Enolpyruvate transferase (EPT) family and the RNA 3' phosphate cyclase family (RTPC). These 2 families differ in that EPT is formed by 3 repeats of an alpha-beta structural domain while RTPC has 3 similar repeats...; Region: EPT_RTPC-like; cl00288 296591004664 putative active site [active] 296591004665 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 296591004666 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 296591004667 Catalytic domain of bacterial PuuE allantoinases, Helicobacter pylori peptidoglycan deacetylase (HpPgdA), and similar proteins; Region: CE4_PuuE_HpPgdA_like; cd10916 296591004668 active site 296591004669 catalytic site [active] 296591004670 tetramer interface [polypeptide binding]; other site 296591004671 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591004672 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 296591004673 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591004674 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 296591004675 dimerization interface [polypeptide binding]; other site 296591004676 substrate binding pocket [chemical binding]; other site 296591004677 xanthine dehydrogenase, molybdopterin binding subunit; Region: xanthine_xdhB; TIGR02965 296591004678 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 296591004679 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 296591004680 xanthine dehydrogenase, small subunit; Region: xanthine_xdhA; TIGR02963 296591004681 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 296591004682 catalytic loop [active] 296591004683 iron binding site [ion binding]; other site 296591004684 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 296591004685 CO dehydrogenase flavoprotein C-terminal domain; Region: CO_deh_flav_C; pfam03450 296591004686 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591004687 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591004688 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 296591004689 dimerization interface [polypeptide binding]; other site 296591004690 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]; Region: COG3845 296591004691 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 296591004692 Walker A/P-loop; other site 296591004693 ATP binding site [chemical binding]; other site 296591004694 Q-loop/lid; other site 296591004695 ABC transporter signature motif; other site 296591004696 Walker B; other site 296591004697 D-loop; other site 296591004698 H-loop/switch region; other site 296591004699 Second domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_II; cd03215 296591004700 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 296591004701 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 296591004702 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 296591004703 TM-ABC transporter signature motif; other site 296591004704 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 296591004705 Transmembrane subunit (TM) of Treponema pallidum (Tp) RbsC-1, RbsC-2 and related proteins. This is a functionally uncharacterized subgroup of TMs which belong to a larger group of TMs of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette; Region: TM_PBP1_transp_TpRbsC_like; cd06580 296591004706 TM-ABC transporter signature motif; other site 296591004707 Uncharacterized ABC-type transport system, periplasmic component/surface lipoprotein [General function prediction only]; Region: Med; COG1744 296591004708 Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea; Region: PBP1_BmpA_Med_like; cd06353 296591004709 putative ligand binding site [chemical binding]; other site 296591004710 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Add; COG1816 296591004711 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 296591004712 active site 296591004713 purine riboside binding site [chemical binding]; other site 296591004714 Protein of unknown function (DUF1228); Region: DUF1228; pfam06779 296591004715 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 296591004716 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591004717 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 296591004718 putative dimerization interface [polypeptide binding]; other site 296591004719 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 296591004720 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 296591004721 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 296591004722 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591004723 NAD(P) binding site [chemical binding]; other site 296591004724 active site 296591004725 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 296591004726 Major Facilitator Superfamily; Region: MFS_1; pfam07690 296591004727 putative substrate translocation pore; other site 296591004728 L-rhamnonate dehydratase; Provisional; Region: PRK15440 296591004729 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 296591004730 metal binding site [ion binding]; metal-binding site 296591004731 substrate binding pocket [chemical binding]; other site 296591004732 Organic radical activating enzymes [Posttranslational modification, protein turnover, chaperones]; Region: NrdG; COG0602 296591004733 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 296591004734 FeS/SAM binding site; other site 296591004735 6-pyruvoyl tetrahydropterin synthase; Region: PTPS; pfam01242 296591004736 active site 296591004737 guanine deaminase; Provisional; Region: PRK09228 296591004738 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 296591004739 active site 296591004740 N-carbamyl-D-amino acid amidohydrolase (DCase, class 6 nitrilases); Region: DCase; cd07569 296591004741 Predicted amidohydrolase [General function prediction only]; Region: COG0388 296591004742 tetramer interface [polypeptide binding]; other site 296591004743 active site 296591004744 catalytic triad [active] 296591004745 dimer interface [polypeptide binding]; other site 296591004746 allantoate amidohydrolase; Reviewed; Region: PRK12893 296591004747 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 296591004748 active site 296591004749 metal binding site [ion binding]; metal-binding site 296591004750 dimer interface [polypeptide binding]; other site 296591004751 diaminopropionate ammonia-lyase; Provisional; Region: PRK08206 296591004752 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 296591004753 catalytic residue [active] 296591004754 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 296591004755 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 296591004756 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 296591004757 putative active site [active] 296591004758 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 296591004759 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 296591004760 substrate binding pocket [chemical binding]; other site 296591004761 membrane-bound complex binding site; other site 296591004762 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 296591004763 dimer interface [polypeptide binding]; other site 296591004764 conserved gate region; other site 296591004765 putative PBP binding loops; other site 296591004766 ABC-ATPase subunit interface; other site 296591004767 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 296591004768 dimer interface [polypeptide binding]; other site 296591004769 conserved gate region; other site 296591004770 putative PBP binding loops; other site 296591004771 ABC-ATPase subunit interface; other site 296591004772 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 296591004773 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 296591004774 Walker A/P-loop; other site 296591004775 ATP binding site [chemical binding]; other site 296591004776 Q-loop/lid; other site 296591004777 ABC transporter signature motif; other site 296591004778 Walker B; other site 296591004779 D-loop; other site 296591004780 H-loop/switch region; other site 296591004781 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 296591004782 trimer interface [polypeptide binding]; other site 296591004783 active site 296591004784 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 296591004785 FAD binding domain; Region: FAD_binding_4; pfam01565 296591004786 Berberine and berberine like; Region: BBE; pfam08031 296591004787 GYD domain; Region: GYD; pfam08734 296591004788 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 296591004789 mercuric reductase; Validated; Region: PRK06370 296591004790 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 296591004791 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 296591004792 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 296591004793 Pyroglutamyl peptidase (PGP) type I, also known as pyrrolidone carboxyl peptidase (pcp) type I: Enzymes responsible for cleaving pyroglutamate (pGlu) from the N-terminal end of specialized proteins. The N-terminal pGlu protects these proteins from...; Region: Peptidase_C15; cd00501 296591004794 putative substrate binding pocket [chemical binding]; other site 296591004795 AC domain interface; other site 296591004796 catalytic triad [active] 296591004797 AB domain interface; other site 296591004798 interchain disulfide; other site 296591004799 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 296591004800 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 296591004801 Predicted metalloprotease [General function prediction only]; Region: COG2321 296591004802 Putative neutral zinc metallopeptidase; Region: Zn_peptidase; pfam04228 296591004803 helicase 45; Provisional; Region: PTZ00424 296591004804 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 296591004805 ATP binding site [chemical binding]; other site 296591004806 Mg++ binding site [ion binding]; other site 296591004807 motif III; other site 296591004808 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 296591004809 nucleotide binding region [chemical binding]; other site 296591004810 ATP-binding site [chemical binding]; other site 296591004811 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 296591004812 diadenosine tetraphosphatase; Reviewed; Region: apaH; PRK00166 296591004813 Escherichia coli ApaH and related proteins, metallophosphatase domain; Region: MPP_ApaH; cd07422 296591004814 active site 296591004815 metal binding site [ion binding]; metal-binding site 296591004816 Hemolysins and related proteins containing CBS domains [General function prediction only]; Region: TlyC; COG1253 296591004817 Domain of unknown function DUF21; Region: DUF21; pfam01595 296591004818 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 296591004819 Transporter associated domain; Region: CorC_HlyC; smart01091 296591004820 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 296591004821 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 296591004822 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 296591004823 active site 296591004824 Int/Topo IB signature motif; other site 296591004825 DNA binding site [nucleotide binding] 296591004826 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 296591004827 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; pfam09907 296591004828 PDDEXK-like domain of unknown function (DUF3799); Region: DUF3799; pfam12684 296591004829 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 296591004830 active site 296591004831 NTP binding site [chemical binding]; other site 296591004832 metal binding triad [ion binding]; metal-binding site 296591004833 Uncharacterized conserved protein (DUF2235); Region: DUF2235; pfam09994 296591004834 Zinc dependent phospholipase C; Region: Zn_dep_PLPC; pfam00882 296591004835 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 296591004836 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 296591004837 non-specific DNA binding site [nucleotide binding]; other site 296591004838 salt bridge; other site 296591004839 sequence-specific DNA binding site [nucleotide binding]; other site 296591004840 Domain of unknown function (DUF955); Region: DUF955; pfam06114 296591004841 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 296591004842 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 296591004843 Walker A motif; other site 296591004844 ATP binding site [chemical binding]; other site 296591004845 Walker B motif; other site 296591004846 arginine finger; other site 296591004847 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 296591004848 Walker A motif; other site 296591004849 ATP binding site [chemical binding]; other site 296591004850 Walker B motif; other site 296591004851 arginine finger; other site 296591004852 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 296591004853 IHF - DNA interface [nucleotide binding]; other site 296591004854 IHF dimer interface [polypeptide binding]; other site 296591004855 Phage integrase, N-terminal; Region: Integrase_l_N; pfam12834 296591004856 Integrase; Region: Integrase_1; pfam12835 296591004857 Plasmid stabilisation system protein; Region: Plasmid_stabil; pfam05016 296591004858 AAA domain; Region: AAA_21; pfam13304 296591004859 RloB-like protein; Region: RloB; pfam13707 296591004860 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 296591004861 Fic/DOC family; Region: Fic; pfam02661 296591004862 coproporphyrinogen III oxidase; Provisional; Region: PRK08446 296591004863 Domain of unknown function (DUF4095); Region: DUF4095; pfam13338 296591004864 Protein of unknwon function (DUF2893); Region: DUF2893; pfam11459 296591004865 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 296591004866 HipA N-terminal domain; Region: Couple_hipA; cl11853 296591004867 HipA-like N-terminal domain; Region: HipA_N; pfam07805 296591004868 HipA-like C-terminal domain; Region: HipA_C; pfam07804 296591004869 RloB-like protein; Region: RloB; pfam13707 296591004870 Protein of unknown function (DUF3620); Region: DUF3620; cl02233 296591004871 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09775 296591004872 HipA-like N-terminal domain; Region: HipA_N; pfam07805 296591004873 HipA-like C-terminal domain; Region: HipA_C; pfam07804 296591004874 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3316 296591004875 Integrase core domain; Region: rve; pfam00665 296591004876 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591004877 beta-ketothiolase; Provisional; Region: PRK09051 296591004878 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 296591004879 dimer interface [polypeptide binding]; other site 296591004880 active site 296591004881 Aspartate alpha-decarboxylase or L-aspartate 1-decarboxylase, a pyruvoyl group-dependent decarboxylase in beta-alanine production; Region: Asp_decarbox; cd06919 296591004882 tetramerization interface [polypeptide binding]; other site 296591004883 active site 296591004884 8-amino-7-oxononanoate synthase; Reviewed; Region: PRK05958 296591004885 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 296591004886 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 296591004887 catalytic residue [active] 296591004888 biotin synthase; Region: bioB; TIGR00433 296591004889 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 296591004890 FeS/SAM binding site; other site 296591004891 Biotin and Thiamin Synthesis associated domain; Region: BATS; smart00876 296591004892 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 296591004893 Cytochrome P450; Region: p450; cl12078 296591004894 Nucleic-acid-binding protein containing Zn-ribbon domain (DUF2082); Region: DUF2082; pfam09855 296591004895 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 296591004896 Putative transposase; Region: Y2_Tnp; pfam04986 296591004897 integron integrase; Region: integrase_gron; TIGR02249 296591004898 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 296591004899 active site 296591004900 DNA binding site [nucleotide binding] 296591004901 Int/Topo IB signature motif; other site 296591004902 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 296591004903 AMP binding site [chemical binding]; other site 296591004904 metal binding site [ion binding]; metal-binding site 296591004905 active site 296591004906 aminopeptidase N; Provisional; Region: pepN; PRK14015 296591004907 Peptidase M1 family containing Aminopeptidase N; Region: M1_APN_1; cd09600 296591004908 active site 296591004909 Zn binding site [ion binding]; other site 296591004910 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 296591004911 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 296591004912 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 296591004913 catalytic site [active] 296591004914 Acyl-coenzyme A synthetases/AMP-(fatty) acid ligases [Lipid metabolism]; Region: Acs; COG0365 296591004915 Uncharacterized subfamily of medium-chain acyl-CoA synthetase (MACS); Region: MACS_like_3; cd05971 296591004916 active site 296591004917 acyl-activating enzyme (AAE) consensus motif; other site 296591004918 putative CoA binding site [chemical binding]; other site 296591004919 AMP binding site [chemical binding]; other site 296591004920 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 296591004921 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 296591004922 ligand binding site [chemical binding]; other site 296591004923 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 296591004924 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 296591004925 active site 296591004926 catalytic tetrad [active] 296591004927 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 296591004928 putative deacylase active site [active] 296591004929 putative glycerol-3-phosphate acyltransferase PlsY; Provisional; Region: PRK00220 296591004930 Bacterial aspartate proteases, retropepsin-like protease family; Region: retropepsin_like_bacteria; cd05483 296591004931 catalytic motif [active] 296591004932 Catalytic residue [active] 296591004933 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG1666 296591004934 Proteins similar to Escherichia coli YajQ; Region: YajQ_like; cd11740 296591004935 UDP-N-acetylenolpyruvoylglucosamine reductase; Provisional; Region: murB; PRK00046 296591004936 FAD binding domain; Region: FAD_binding_4; pfam01565 296591004937 UDP-N-acetylenolpyruvoylglucosamine reductase, C-terminal domain; Region: MurB_C; pfam02873 296591004938 Uncharacterized conserved protein [Function unknown]; Region: COG4278 296591004939 argininosuccinate synthase; Validated; Region: PRK05370 296591004940 argininosuccinate synthase; Provisional; Region: PRK13820 296591004941 Protein of unknown function (DUF1255); Region: DUF1255; pfam06865 296591004942 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 296591004943 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 296591004944 ArsC family; Region: ArsC; pfam03960 296591004945 putative catalytic residues [active] 296591004946 proline iminopeptidase, Neisseria-type subfamily; Region: pro_imino_pep_1; TIGR01249 296591004947 Folylpolyglutamate synthase [Coenzyme metabolism]; Region: FolC; COG0285 296591004948 Mur ligase middle domain; Region: Mur_ligase_M; pfam08245 296591004949 Mur ligase family, glutamate ligase domain; Region: Mur_ligase_C; pfam02875 296591004950 C2 domain; Region: C2; cl14603 296591004951 Sporulation related domain; Region: SPOR; pfam05036 296591004952 Colicin V production protein; Region: Colicin_V; pfam02674 296591004953 amidophosphoribosyltransferase; Provisional; Region: PRK09246 296591004954 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 296591004955 active site 296591004956 tetramer interface [polypeptide binding]; other site 296591004957 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 296591004958 active site 296591004959 O-succinylhomoserine sulfhydrylase; Validated; Region: PRK08133 296591004960 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 296591004961 homodimer interface [polypeptide binding]; other site 296591004962 substrate-cofactor binding pocket; other site 296591004963 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591004964 catalytic residue [active] 296591004965 glutamyl-tRNA synthetase; Reviewed; Region: gltX; PRK01406 296591004966 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 296591004967 active site 296591004968 HIGH motif; other site 296591004969 catalytic core domain of discriminating glutamyl-tRNA synthetase; Region: GluRS_core; cd00808 296591004970 active site 296591004971 KMSKS motif; other site 296591004972 Uncharacterized protein related to plant photosystem II stability/assembly factor [General function prediction only]; Region: COG4447 296591004973 Creatinine amidohydrolase; Region: Creatininase; pfam02633 296591004974 Uncharacterized conserved protein [Function unknown]; Region: COG3391 296591004975 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 296591004976 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 296591004977 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591004978 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591004979 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 296591004980 dimerization interface [polypeptide binding]; other site 296591004981 Protein of unknown function (DUF4242); Region: DUF4242; pfam14026 296591004982 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 296591004983 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 296591004984 putative ligand binding site [chemical binding]; other site 296591004985 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 296591004986 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 296591004987 Walker A/P-loop; other site 296591004988 ATP binding site [chemical binding]; other site 296591004989 Q-loop/lid; other site 296591004990 ABC transporter signature motif; other site 296591004991 Walker B; other site 296591004992 D-loop; other site 296591004993 H-loop/switch region; other site 296591004994 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 296591004995 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 296591004996 Walker A/P-loop; other site 296591004997 ATP binding site [chemical binding]; other site 296591004998 Q-loop/lid; other site 296591004999 ABC transporter signature motif; other site 296591005000 Walker B; other site 296591005001 D-loop; other site 296591005002 H-loop/switch region; other site 296591005003 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 296591005004 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 296591005005 TM-ABC transporter signature motif; other site 296591005006 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 296591005007 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 296591005008 TM-ABC transporter signature motif; other site 296591005009 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 296591005010 Type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene; Region: PBP1_alkylbenzenes_like; cd06360 296591005011 putative ligand binding site [chemical binding]; other site 296591005012 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 296591005013 Alpha/beta hydrolase of unknown function (DUF1057); Region: DUF1057; pfam06342 296591005014 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 296591005015 Benzoate CoA ligase (BCL) and 4-Hydroxybenzoate-Coenzyme A Ligase (4-HBA-CoA ligase); Region: BCL_4HBCL; cd05959 296591005016 dimer interface [polypeptide binding]; other site 296591005017 acyl-activating enzyme (AAE) consensus motif; other site 296591005018 putative active site [active] 296591005019 putative AMP binding site [chemical binding]; other site 296591005020 putative CoA binding site [chemical binding]; other site 296591005021 chemical substrate binding site [chemical binding]; other site 296591005022 aldehyde dehydrogenase; Provisional; Region: PRK11903 296591005023 NAD(P)+-dependent aldehyde dehydrogenase superfamily; Region: ALDH-SF; cl11961 296591005024 NAD(P) binding site [chemical binding]; other site 296591005025 catalytic residues [active] 296591005026 anaerobic benzoate catabolism transcriptional regulator; Reviewed; Region: PRK08154 296591005027 Helix-turn-helix; Region: HTH_3; pfam01381 296591005028 sequence-specific DNA binding site [nucleotide binding]; other site 296591005029 salt bridge; other site 296591005030 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 296591005031 ADP binding site [chemical binding]; other site 296591005032 magnesium binding site [ion binding]; other site 296591005033 putative shikimate binding site; other site 296591005034 benzoyl-CoA-dihydrodiol lyase; Provisional; Region: PRK08184 296591005035 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 296591005036 substrate binding site [chemical binding]; other site 296591005037 oxyanion hole (OAH) forming residues; other site 296591005038 trimer interface [polypeptide binding]; other site 296591005039 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; cl15762 296591005040 substrate binding site [chemical binding]; other site 296591005041 trimer interface [polypeptide binding]; other site 296591005042 oxyanion hole (OAH) forming residues; other site 296591005043 Phenylacetic acid catabolic protein; Region: PaaA_PaaC; cl01346 296591005044 benzoyl-CoA oxygenase/reductase, BoxA protein; Region: benzo_boxA; TIGR03224 296591005045 4Fe-4S binding domain; Region: Fer4; pfam00037 296591005046 4Fe-4S binding domain; Region: Fer4; pfam00037 296591005047 These ferredoxin reductases are related to the NADPH cytochrome p450 reductases (CYPOR), but lack the FAD-binding region connecting sub-domain. Ferredoxin-NADP+ reductase (FNR) is an FAD-containing enzyme that catalyzes the reversible electron transfer...; Region: CYPOR_like_FNR; cd06208 296591005048 dimerization interface [polypeptide binding]; other site 296591005049 FAD binding pocket [chemical binding]; other site 296591005050 FAD binding motif [chemical binding]; other site 296591005051 catalytic residues [active] 296591005052 NAD binding pocket [chemical binding]; other site 296591005053 phosphate binding motif [ion binding]; other site 296591005054 beta-alpha-beta structure motif; other site 296591005055 enoyl-CoA hydratase; Provisional; Region: PRK05995 296591005056 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 296591005057 substrate binding site [chemical binding]; other site 296591005058 oxyanion hole (OAH) forming residues; other site 296591005059 trimer interface [polypeptide binding]; other site 296591005060 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 296591005061 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 296591005062 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 296591005063 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 296591005064 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 296591005065 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 296591005066 substrate binding site [chemical binding]; other site 296591005067 oxyanion hole (OAH) forming residues; other site 296591005068 trimer interface [polypeptide binding]; other site 296591005069 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; cl15762 296591005070 Ub domain fused to Mut7-C; Region: Ub-Mut7C; pfam14451 296591005071 Protein of unknown function DUF82; Region: DUF82; pfam01927 296591005072 Uncharacterized conserved protein [Function unknown]; Region: COG1656 296591005073 Protein of unknown function (DUF1345); Region: DUF1345; pfam07077 296591005074 EamA-like transporter family; Region: EamA; pfam00892 296591005075 Carboxylate/Amino Acid/Amine Transporter; Region: 2A78; TIGR00950 296591005076 EamA-like transporter family; Region: EamA; pfam00892 296591005077 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 296591005078 6-O-methylguanine DNA methyltransferase, ribonuclease-like domain; Region: Methyltransf_1N; pfam02870 296591005079 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 296591005080 DNA binding site [nucleotide binding] 296591005081 active site 296591005082 Adenosine deaminase [Nucleotide transport and metabolism]; Region: Ada; COG2169 296591005083 Metal binding domain of Ada; Region: Ada_Zn_binding; pfam02805 296591005084 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 296591005085 AlkA N-terminal domain; Region: AlkA_N; pfam06029 296591005086 3-methyl-adenine DNA glycosylase II; Provisional; Region: PRK10308 296591005087 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 296591005088 minor groove reading motif; other site 296591005089 helix-hairpin-helix signature motif; other site 296591005090 substrate binding pocket [chemical binding]; other site 296591005091 active site 296591005092 Phosphomannomutase [Carbohydrate transport and metabolism]; Region: {ManB}; COG1109 296591005093 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 296591005094 active site 296591005095 substrate binding site [chemical binding]; other site 296591005096 metal binding site [ion binding]; metal-binding site 296591005097 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 296591005098 Lipopolysaccharide heptosyltransferase is involved in the biosynthesis of lipooligosaccharide (LOS). Lipopolysaccharide (LPS) is a major component of the outer membrane of gram-negative bacteria. LPS heptosyltransferase transfers heptose molecules from...; Region: GT1_LPS_heptosyltransferase; cd03789 296591005099 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 296591005100 3-deoxy-D-manno-octulosonic-acid transferase; Reviewed; Region: PRK05749 296591005101 3-Deoxy-D-manno-octulosonic-acid transferase (kdotransferase); Region: Glycos_transf_N; pfam04413 296591005102 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 296591005103 Fatty acid desaturase; Region: FA_desaturase_2; pfam03405 296591005104 Ketosteroid isomerase homolog [Function unknown]; Region: COG4319 296591005105 SnoaL-like domain; Region: SnoaL_3; pfam13474 296591005106 PBP superfamily domain; Region: PBP_like_2; cl17296 296591005107 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_7; cd08353 296591005108 putative dimer interface [polypeptide binding]; other site 296591005109 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 296591005110 Domain of unknown function (DUF1772); Region: DUF1772; cl12097 296591005111 Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase; Region: GAT1_cyanophycinase; cd03145 296591005112 proposed catalytic triad [active] 296591005113 active site nucleophile [active] 296591005114 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 296591005115 putative hydrophobic ligand binding site [chemical binding]; other site 296591005116 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 296591005117 Cysteine dioxygenase type I; Region: CDO_I; pfam05995 296591005118 Predicted metal-binding integral membrane protein [Function unknown]; Region: COG5486 296591005119 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 296591005120 Protein of unknown function (DUF1326); Region: DUF1326; cl02375 296591005121 PAP2, haloperoxidase_like subfamily. Haloperoxidases catalyze the oxidation of halides such as bromide or chloride by hydrogen peroxide, which results in subsequent halogenation of organic substrates, or halide-assisted disproportionation of hydrogen...; Region: PAP2_haloperoxidase; cd03398 296591005122 active site 296591005123 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 296591005124 Cupin domain; Region: Cupin_2; pfam07883 296591005125 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 296591005126 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 296591005127 active site residue [active] 296591005128 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 296591005129 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 296591005130 S-adenosylmethionine binding site [chemical binding]; other site 296591005131 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 296591005132 Protein export membrane protein; Region: SecD_SecF; cl14618 296591005133 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 296591005134 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 296591005135 HlyD family secretion protein; Region: HlyD_3; pfam13437 296591005136 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 296591005137 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 296591005138 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 296591005139 Uncharacterized conserved protein [Function unknown]; Region: COG1434 296591005140 putative active site [active] 296591005141 Glutaryl-CoA dehydrogenase; Region: GCD; cd01151 296591005142 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 296591005143 FAD binding site [chemical binding]; other site 296591005144 substrate binding pocket [chemical binding]; other site 296591005145 catalytic base [active] 296591005146 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591005147 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 296591005148 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator similar to regulators involved in the catabolism of aromatic compounds, contains type 2 periplasmic binding fold; Region: PBP2_LTTR_aromatics_like_2; cd08448 296591005149 putative dimerization interface [polypeptide binding]; other site 296591005150 putative substrate binding pocket [chemical binding]; other site 296591005151 methionine sulfoxide reductase A; Provisional; Region: PRK14054 296591005152 Succinylglutamate desuccinylase / Aspartoacylase family; Region: AstE_AspA; pfam04952 296591005153 Peptidase M14 Succinylglutamate desuccinylase (ASTE)/aspartoacylase (ASPA) subfamily; Region: M14_ASTE_ASPA_like; cd06230 296591005154 active site 296591005155 Zn binding site [ion binding]; other site 296591005156 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 296591005157 S-adenosylmethionine binding site [chemical binding]; other site 296591005158 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cl17326 296591005159 putative DNA binding helix; other site 296591005160 metal binding site 2 [ion binding]; metal-binding site 296591005161 metal binding site 1 [ion binding]; metal-binding site 296591005162 structural Zn2+ binding site [ion binding]; other site 296591005163 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 296591005164 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 296591005165 Walker A/P-loop; other site 296591005166 ATP binding site [chemical binding]; other site 296591005167 Q-loop/lid; other site 296591005168 ABC transporter signature motif; other site 296591005169 Walker B; other site 296591005170 D-loop; other site 296591005171 H-loop/switch region; other site 296591005172 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 296591005173 ABC-type transport system, involved in lipoprotein release, permease component [Cell envelope biogenesis, outer membrane]; Region: LolE; COG4591 296591005174 Protein of unknown function (DUF3299); Region: DUF3299; cl01387 296591005175 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 296591005176 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 296591005177 Membrane transport protein; Region: Mem_trans; cl09117 296591005178 Protein of unknown function, DUF486; Region: DUF486; cl01236 296591005179 Phosphate transport regulator (distant homolog of PhoU) [Inorganic ion transport and metabolism]; Region: COG1392 296591005180 Phosphate/sulphate permeases [Inorganic ion transport and metabolism]; Region: PitA; COG0306 296591005181 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 296591005182 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 296591005183 Coenzyme A binding pocket [chemical binding]; other site 296591005184 30S ribosomal protein S16; Reviewed; Region: rpsP; PRK00040 296591005185 16S rRNA-processing protein RimM; Provisional; Region: rimM; PRK00122 296591005186 RimM N-terminal domain; Region: RimM; pfam01782 296591005187 PRC-barrel domain; Region: PRC; pfam05239 296591005188 tRNA (guanine-N(1)-)-methyltransferase; Reviewed; Region: trmD; PRK00026 296591005189 50S ribosomal protein L19; Provisional; Region: rplS; PRK05338 296591005190 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 296591005191 putative active site [active] 296591005192 putative CoA binding site [chemical binding]; other site 296591005193 nudix motif; other site 296591005194 metal binding site [ion binding]; metal-binding site 296591005195 CobD/Cbib protein; Region: CobD_Cbib; cl00561 296591005196 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 296591005197 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 296591005198 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591005199 homodimer interface [polypeptide binding]; other site 296591005200 catalytic residue [active] 296591005201 S1_YloQ_GTPase: YloQ GTase family (also known as YjeQ and CpgA), S1-like RNA-binding domain. Proteins in the YloQ GTase family bind the ribosome and have GTPase activity. The precise role of this family is unknown. The protein structure is composed of...; Region: S1_YloQ_GTPase; cd04466 296591005202 GTPase RsgA; Reviewed; Region: PRK00098 296591005203 RNA binding site [nucleotide binding]; other site 296591005204 homodimer interface [polypeptide binding]; other site 296591005205 Ribosomal interacting GTPase YjeQ/EngC, a circularly permuted subfamily of the Ras GTPases; Region: YjeQ_EngC; cd01854 296591005206 GTPase/Zn-binding domain interface [polypeptide binding]; other site 296591005207 GTP/Mg2+ binding site [chemical binding]; other site 296591005208 G4 box; other site 296591005209 G5 box; other site 296591005210 G1 box; other site 296591005211 Switch I region; other site 296591005212 G2 box; other site 296591005213 G3 box; other site 296591005214 Switch II region; other site 296591005215 PCD_DCoH: The bifunctional protein pterin-4alpha-carbinolamine dehydratase (PCD), also known as DCoH (dimerization cofactor of hepatocyte nuclear factor-1), is both a transcription activator and a metabolic enzyme. DCoH stimulates gene expression by...; Region: PCD_DCoH_subfamily_a; cd00913 296591005216 aromatic arch; other site 296591005217 DCoH dimer interaction site [polypeptide binding]; other site 296591005218 DCoH /HNF-1 dimer interaction site [polypeptide binding]; other site 296591005219 DCoH tetramer interaction site [polypeptide binding]; other site 296591005220 substrate binding site [chemical binding]; other site 296591005221 Peptidase family M48; Region: Peptidase_M48; pfam01435 296591005222 DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins; Region: Orn; cd06135 296591005223 catalytic site [active] 296591005224 putative active site [active] 296591005225 putative substrate binding site [chemical binding]; other site 296591005226 dimer interface [polypeptide binding]; other site 296591005227 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 296591005228 DEAD-like helicases superfamily; Region: DEXDc; smart00487 296591005229 ATP binding site [chemical binding]; other site 296591005230 Mg++ binding site [ion binding]; other site 296591005231 motif III; other site 296591005232 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 296591005233 nucleotide binding region [chemical binding]; other site 296591005234 ATP-binding site [chemical binding]; other site 296591005235 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 296591005236 Novel bacterial esterase that cleaves esters on halogenated cyclic compounds; Region: Esterase_713_like; cl17303 296591005237 catalytic site [active] 296591005238 Putative phage integrase; Region: Phage_Integr_2; pfam13009 296591005239 Putative phage integrase; Region: Phage_Integr_2; pfam13009 296591005240 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 296591005241 DNA binding site [nucleotide binding] 296591005242 active site 296591005243 Int/Topo IB signature motif; other site 296591005244 catalytic residues [active] 296591005245 ATP-dependent exoDNAse (exonuclease V), alpha subunit - helicase superfamily I member [DNA replication, recombination, and repair]; Region: RecD; COG0507 296591005246 AAA domain; Region: AAA_30; pfam13604 296591005247 Family description; Region: UvrD_C_2; pfam13538 296591005248 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591005249 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 296591005250 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 296591005251 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 296591005252 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 296591005253 Transcriptional regulators [Transcription]; Region: FadR; COG2186 296591005254 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591005255 DNA-binding site [nucleotide binding]; DNA binding site 296591005256 FCD domain; Region: FCD; pfam07729 296591005257 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 296591005258 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 296591005259 Predicted homoserine dehydrogenase [Amino acid transport and metabolism]; Region: COG4091 296591005260 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 296591005261 SAF domain of putative dehydrogenases or oxidoreductases; Region: SAF_DH_OX_like; cd11616 296591005262 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; cl17312 296591005263 Transcriptional regulators [Transcription]; Region: FadR; COG2186 296591005264 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591005265 DNA-binding site [nucleotide binding]; DNA binding site 296591005266 FCD domain; Region: FCD; pfam07729 296591005267 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 296591005268 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 296591005269 substrate binding pocket [chemical binding]; other site 296591005270 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 296591005271 dimer interface [polypeptide binding]; other site 296591005272 hexamer interface [polypeptide binding]; other site 296591005273 active site 2 [active] 296591005274 guanosine 5'-monophosphate oxidoreductase; Provisional; Region: PRK05458 296591005275 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 296591005276 active site 296591005277 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591005278 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591005279 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 296591005280 dimerization interface [polypeptide binding]; other site 296591005281 hypothetical protein; Provisional; Region: PRK07079 296591005282 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_2; cd05679 296591005283 metal binding site [ion binding]; metal-binding site 296591005284 putative dimer interface [polypeptide binding]; other site 296591005285 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591005286 DNA-dependent helicase II; Provisional; Region: uvrD; PRK11773 296591005287 Part of AAA domain; Region: AAA_19; pfam13245 296591005288 Family description; Region: UvrD_C_2; pfam13538 296591005289 Predicted phosphatase [General function prediction only]; Region: PhoX; COG3211 296591005290 Putative homoserine kinase type II (protein kinase fold) [General function prediction only]; Region: COG2334 296591005291 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 296591005292 putative active site [active] 296591005293 putative substrate binding site [chemical binding]; other site 296591005294 ATP binding site [chemical binding]; other site 296591005295 Protein of unknown function (DUF2782); Region: DUF2782; pfam11191 296591005296 DNA polymerase I; Provisional; Region: PRK05755 296591005297 PIN domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: PIN_53EXO; cd09859 296591005298 active site 296591005299 metal binding site 1 [ion binding]; metal-binding site 296591005300 putative 5' ssDNA interaction site; other site 296591005301 metal binding site 3; metal-binding site 296591005302 metal binding site 2 [ion binding]; metal-binding site 296591005303 H3TH domain of the 5'-3' exonuclease of Taq DNA polymerase I and homologs; Region: H3TH_53EXO; cd09898 296591005304 putative DNA binding site [nucleotide binding]; other site 296591005305 putative metal binding site [ion binding]; other site 296591005306 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 296591005307 active site 296591005308 catalytic site [active] 296591005309 substrate binding site [chemical binding]; other site 296591005310 Polymerase I functions primarily to fill DNA gaps that arise during DNA repair, recombination and replication; Region: DNA_pol_A_pol_I_C; cd08637 296591005311 active site 296591005312 DNA binding site [nucleotide binding] 296591005313 catalytic site [active] 296591005314 Predicted periplasmic protein [Function unknown]; Region: COG3904 296591005315 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 296591005316 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 296591005317 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 296591005318 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 296591005319 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 296591005320 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428; cl00437 296591005321 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in mouse RS21-C6 protein and its homologs; Region: NTP-PPase_RS21-C6_like; cd11537 296591005322 homodimer interface [polypeptide binding]; other site 296591005323 chemical substrate binding site [chemical binding]; other site 296591005324 oligomer interface [polypeptide binding]; other site 296591005325 metal binding site [ion binding]; metal-binding site 296591005326 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 296591005327 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 296591005328 dimerization interface [polypeptide binding]; other site 296591005329 ligand binding site [chemical binding]; other site 296591005330 NADP binding site [chemical binding]; other site 296591005331 catalytic site [active] 296591005332 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 296591005333 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 296591005334 substrate binding site [chemical binding]; other site 296591005335 ATP binding site [chemical binding]; other site 296591005336 Transcriptional regulators [Transcription]; Region: PurR; COG1609 296591005337 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 296591005338 DNA binding site [nucleotide binding] 296591005339 domain linker motif; other site 296591005340 Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR; Region: PBP1_RegR_EndR_KdgR_like; cd06283 296591005341 putative dimerization interface [polypeptide binding]; other site 296591005342 putative ligand binding site [chemical binding]; other site 296591005343 PAS domain S-box; Region: sensory_box; TIGR00229 296591005344 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 296591005345 putative active site [active] 296591005346 heme pocket [chemical binding]; other site 296591005347 PAS domain S-box; Region: sensory_box; TIGR00229 296591005348 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 296591005349 putative active site [active] 296591005350 heme pocket [chemical binding]; other site 296591005351 GAF domain; Region: GAF; pfam01590 296591005352 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 296591005353 dimer interface [polypeptide binding]; other site 296591005354 phosphorylation site [posttranslational modification] 296591005355 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 296591005356 ATP binding site [chemical binding]; other site 296591005357 Mg2+ binding site [ion binding]; other site 296591005358 G-X-G motif; other site 296591005359 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 296591005360 Thiosulfate sulfurtransferase (TST), N-terminal, inactive domain. TST contains 2 copies of the Rhodanese Homology Domain; this is the 1st repeat, which does not contain the catalytically active Cys residue. The role of the 1st repeat is uncertain, but it...; Region: TST_Repeat_1; cd01448 296591005361 active site residue [active] 296591005362 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 296591005363 active site residue [active] 296591005364 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 296591005365 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 296591005366 [2Fe-2S] cluster binding site [ion binding]; other site 296591005367 C-terminal catalytic domain of the oxygenase alpha subunit of Rieske-type non-heme iron aromatic ring-hydroxylating oxygenases; Region: RHO_alpha_C; cd00680 296591005368 alpha subunit interface [polypeptide binding]; other site 296591005369 active site 296591005370 substrate binding site [chemical binding]; other site 296591005371 Fe binding site [ion binding]; other site 296591005372 exodeoxyribonuclease VII small subunit; Provisional; Region: PRK00977 296591005373 Geranylgeranyl pyrophosphate synthase [Coenzyme metabolism]; Region: IspA; COG0142 296591005374 Trans-Isoprenyl Diphosphate Synthases, head-to-tail; Region: Trans_IPPS_HT; cd00685 296591005375 substrate binding pocket [chemical binding]; other site 296591005376 chain length determination region; other site 296591005377 substrate-Mg2+ binding site; other site 296591005378 catalytic residues [active] 296591005379 aspartate-rich region 1; other site 296591005380 active site lid residues [active] 296591005381 aspartate-rich region 2; other site 296591005382 1-deoxy-D-xylulose-5-phosphate synthase; Provisional; Region: PRK05444 296591005383 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 296591005384 TPP-binding site; other site 296591005385 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 296591005386 PYR/PP interface [polypeptide binding]; other site 296591005387 dimer interface [polypeptide binding]; other site 296591005388 TPP binding site [chemical binding]; other site 296591005389 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 296591005390 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 296591005391 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 296591005392 TRAP-type mannitol/chloroaromatic compound transport system, periplasmic component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT1; COG4663 296591005393 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 296591005394 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 296591005395 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 296591005396 TRAP-type mannitol/chloroaromatic compound transport system, large permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT3; COG4664 296591005397 DctM-like transporters; Region: DctM; pfam06808 296591005398 TRAP-type mannitol/chloroaromatic compound transport system, small permease component [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FcbT2; COG4665 296591005399 selenophosphate synthetase; Provisional; Region: PRK00943 296591005400 Selenophosphate synthetase (SelD) catalyzes the conversion of selenium to selenophosphate which is required by a number of bacterial, archaeal and eukaryotic organisms for synthesis of Secys-tRNA, the precursor of selenocysteine in selenoenzymes. The...; Region: SelD; cd02195 296591005401 dimerization interface [polypeptide binding]; other site 296591005402 putative ATP binding site [chemical binding]; other site 296591005403 putative glycosyltransferase, TIGR04348 family; Region: TIGR04348 296591005404 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 296591005405 ergothioneine biosynthesis protein EgtB; Region: egtB_TIGR03440 296591005406 Formylglycine-generating sulfatase enzyme; Region: FGE-sulfatase; pfam03781 296591005407 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 296591005408 PBP superfamily domain; Region: PBP_like; pfam12727 296591005409 Transmembrane subunit (TM) found in Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which generally bind type 2 PBPs. These types of transporters consist of a PBP, two TMs, and two cytoplasmic ABC ATPase subunits, and...; Region: TM_PBP2; cl00427 296591005410 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 296591005411 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 296591005412 Walker A/P-loop; other site 296591005413 ATP binding site [chemical binding]; other site 296591005414 Q-loop/lid; other site 296591005415 ABC transporter signature motif; other site 296591005416 Walker B; other site 296591005417 D-loop; other site 296591005418 H-loop/switch region; other site 296591005419 PBP superfamily domain; Region: PBP_like_2; pfam12849 296591005420 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 296591005421 Reeler-like domain of YcnI and similar proteins; Region: YcnI_like; cd08545 296591005422 Copper(I)-binding protein [Inorganic ion transport and metabolism]; Region: COG2847 296591005423 putative DNA-binding transcriptional regulator; Provisional; Region: PRK09791 296591005424 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591005425 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 296591005426 dimerization interface [polypeptide binding]; other site 296591005427 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591005428 O-methyltransferase; Region: Methyltransf_2; pfam00891 296591005429 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 296591005430 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 296591005431 chromosome condensation membrane protein; Provisional; Region: PRK14196 296591005432 hypothetical protein; Provisional; Region: PRK07475 296591005433 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 296591005434 DctM-like transporters; Region: DctM; pfam06808 296591005435 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 296591005436 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 296591005437 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 296591005438 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591005439 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591005440 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 296591005441 dimerization interface [polypeptide binding]; other site 296591005442 hypothetical protein; Provisional; Region: PRK05463 296591005443 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 296591005444 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 296591005445 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 296591005446 DctM-like transporters; Region: DctM; pfam06808 296591005447 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 296591005448 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 296591005449 5-oxoprolinase; Region: PLN02666 296591005450 Hydantoinase/oxoprolinase N-terminal region; Region: Hydant_A_N; pfam05378 296591005451 Hydantoinase/oxoprolinase; Region: Hydantoinase_A; pfam01968 296591005452 N-methylhydantoinase B/acetone carboxylase, alpha subunit [Amino acid transport and metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: HyuB; COG0146 296591005453 DinB family; Region: DinB; cl17821 296591005454 DinB superfamily; Region: DinB_2; pfam12867 296591005455 Helix-hairpin-helix motif; Region: HHH_3; pfam12836 296591005456 ADP-L-glycero-D-mannoheptose 6-epimerase (GME), extended (e) SDRs; Region: ADP_GME_SDR_e; cd05248 296591005457 ADP-L-glycero-D-manno-heptose-6-epimerase; Region: heptose_epim; TIGR02197 296591005458 NADP binding site [chemical binding]; other site 296591005459 homopentamer interface [polypeptide binding]; other site 296591005460 substrate binding site [chemical binding]; other site 296591005461 active site 296591005462 RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer...; Region: RfaE_like; cd01172 296591005463 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 296591005464 putative ribose interaction site [chemical binding]; other site 296591005465 putative ADP binding site [chemical binding]; other site 296591005466 tetratricopeptide repeat protein; Provisional; Region: PRK11788 296591005467 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 296591005468 binding surface 296591005469 TPR motif; other site 296591005470 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 296591005471 Protein of unknown function (DUF1049); Region: DUF1049; pfam06305 296591005472 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 296591005473 IHF dimer interface [polypeptide binding]; other site 296591005474 IHF - DNA interface [nucleotide binding]; other site 296591005475 30S ribosomal protein S1; Reviewed; Region: rpsA; PRK06299 296591005476 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 296591005477 RNA binding site [nucleotide binding]; other site 296591005478 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 296591005479 RNA binding site [nucleotide binding]; other site 296591005480 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 296591005481 RNA binding site [nucleotide binding]; other site 296591005482 S1_RPS1_repeat_ec4: 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_ec4; cd05689 296591005483 RNA binding site [nucleotide binding]; other site 296591005484 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 296591005485 RNA binding site [nucleotide binding]; other site 296591005486 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 296591005487 RNA binding site [nucleotide binding]; other site 296591005488 bifunctional 3-phosphoshikimate 1-carboxyvinyltransferase/cytidine monophosphate kinase; Provisional; Region: PRK11860 296591005489 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 296591005490 hinge; other site 296591005491 active site 296591005492 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 296591005493 CMP-binding site; other site 296591005494 The sites determining sugar specificity; other site 296591005495 Prephenate dehydrogenase [Amino acid transport and metabolism]; Region: TyrA; COG0287 296591005496 prephenate dehydrogenase; Validated; Region: PRK08507 296591005497 Chorismate mutase type II; Region: CM_2; pfam01817 296591005498 Prephenate dehydratase [Amino acid transport and metabolism]; Region: PheA; COG0077 296591005499 Prephenate dehydratase; Region: PDT; pfam00800 296591005500 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 296591005501 putative L-Phe binding site [chemical binding]; other site 296591005502 3-phosphoserine/phosphohydroxythreonine aminotransferase; Provisional; Region: PRK05355 296591005503 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 296591005504 catalytic residue [active] 296591005505 Uncharacterized protein conserved in bacteria (DUF2059); Region: DUF2059; pfam09832 296591005506 DNA gyrase subunit A; Validated; Region: PRK05560 296591005507 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 296591005508 CAP-like domain; other site 296591005509 active site 296591005510 primary dimer interface [polypeptide binding]; other site 296591005511 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 296591005512 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 296591005513 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 296591005514 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 296591005515 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 296591005516 DNA gyrase C-terminal domain, beta-propeller; Region: DNA_gyraseA_C; pfam03989 296591005517 Outer membrane protein and related peptidoglycan-associated (lipo)proteins [Cell envelope biogenesis, outer membrane]; Region: OmpA; COG2885 296591005518 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 296591005519 ligand binding site [chemical binding]; other site 296591005520 bifunctional 3-demethylubiquinone-9 3-methyltransferase/ 2-octaprenyl-6-hydroxy phenol methylase; Provisional; Region: PRK05134 296591005521 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 296591005522 S-adenosylmethionine binding site [chemical binding]; other site 296591005523 phosphoglycolate phosphatase; Provisional; Region: PRK13222 296591005524 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 296591005525 motif II; other site 296591005526 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 296591005527 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 296591005528 RNA binding surface [nucleotide binding]; other site 296591005529 Pseudouridine synthase, Escherichia coli RsuA like; Region: PseudoU_synth_RsuA; cd02553 296591005530 active site 296591005531 uracil binding [chemical binding]; other site 296591005532 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 296591005533 PQQ-dependent catabolism-associated beta-propeller protein; Region: PQQ_ABC_repeats; TIGR03866 296591005534 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 296591005535 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 296591005536 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 296591005537 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 296591005538 NodB motif; other site 296591005539 active site 296591005540 catalytic site [active] 296591005541 metal binding site [ion binding]; metal-binding site 296591005542 Sterol desaturase [Lipid metabolism]; Region: ERG3; COG3000 296591005543 Fatty acid hydroxylase superfamily; Region: FA_hydroxylase; pfam04116 296591005544 Etoposide-induced protein 2.4 (EI24); Region: EI24; pfam07264 296591005545 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 296591005546 Competence-damaged protein. CinA is the first gene in the competence- inducible (cin) operon and is thought to be specifically required at some stage in the process of transformation. This domain is closely related to a domain, found in a variety of...; Region: cinA; cd00885 296591005547 putative MPT binding site; other site 296591005548 glutamine synthetase; Provisional; Region: glnA; PRK09469 296591005549 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 296591005550 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 296591005551 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 296591005552 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 296591005553 dimer interface [polypeptide binding]; other site 296591005554 phosphorylation site [posttranslational modification] 296591005555 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 296591005556 ATP binding site [chemical binding]; other site 296591005557 Mg2+ binding site [ion binding]; other site 296591005558 G-X-G motif; other site 296591005559 nitrogen regulation protein NR(I); Region: ntrC; TIGR01818 296591005560 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 296591005561 active site 296591005562 phosphorylation site [posttranslational modification] 296591005563 intermolecular recognition site; other site 296591005564 dimerization interface [polypeptide binding]; other site 296591005565 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 296591005566 Walker A motif; other site 296591005567 ATP binding site [chemical binding]; other site 296591005568 Walker B motif; other site 296591005569 arginine finger; other site 296591005570 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 296591005571 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 296591005572 putative binding surface; other site 296591005573 active site 296591005574 Response regulator receiver domain; Region: Response_reg; pfam00072 296591005575 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 296591005576 active site 296591005577 phosphorylation site [posttranslational modification] 296591005578 intermolecular recognition site; other site 296591005579 dimerization interface [polypeptide binding]; other site 296591005580 Response regulator receiver domain; Region: Response_reg; pfam00072 296591005581 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 296591005582 active site 296591005583 phosphorylation site [posttranslational modification] 296591005584 intermolecular recognition site; other site 296591005585 dimerization interface [polypeptide binding]; other site 296591005586 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 296591005587 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 296591005588 putative active site [active] 296591005589 heme pocket [chemical binding]; other site 296591005590 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 296591005591 dimer interface [polypeptide binding]; other site 296591005592 phosphorylation site [posttranslational modification] 296591005593 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 296591005594 ATP binding site [chemical binding]; other site 296591005595 Mg2+ binding site [ion binding]; other site 296591005596 G-X-G motif; other site 296591005597 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 296591005598 non-specific DNA binding site [nucleotide binding]; other site 296591005599 SOS-response transcriptional repressors (RecA-mediated autopeptidases) [Transcription / Signal transduction mechanisms]; Region: LexA; COG1974 296591005600 salt bridge; other site 296591005601 sequence-specific DNA binding site [nucleotide binding]; other site 296591005602 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 296591005603 Catalytic site [active] 296591005604 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591005605 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591005606 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 296591005607 dimerization interface [polypeptide binding]; other site 296591005608 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591005609 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 296591005610 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 296591005611 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 296591005612 putative catalytic site [active] 296591005613 putative phosphate binding site [ion binding]; other site 296591005614 active site 296591005615 metal binding site A [ion binding]; metal-binding site 296591005616 DNA binding site [nucleotide binding] 296591005617 putative AP binding site [nucleotide binding]; other site 296591005618 putative metal binding site B [ion binding]; other site 296591005619 Domain of unknown function (DUF4337); Region: DUF4337; pfam14235 296591005620 Dihydrofolate reductase [Coenzyme metabolism]; Region: FolA; COG0262 296591005621 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 296591005622 folate binding site [chemical binding]; other site 296591005623 NADP+ binding site [chemical binding]; other site 296591005624 thymidylate synthase; Reviewed; Region: thyA; PRK01827 296591005625 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 296591005626 dimerization interface [polypeptide binding]; other site 296591005627 active site 296591005628 Intradiol dioxygenases catalyze the critical ring-cleavage step in the conversion of catecholate derivatives to citric acid cycle intermediates. This family contains catechol 1,2-dioxygenases and protocatechuate 3,4-dioxygenases which are mononuclear...; Region: intradiol_dioxygenase; cl17208 296591005629 active site 296591005630 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 296591005631 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 296591005632 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 296591005633 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 296591005634 FAD binding domain; Region: FAD_binding_4; pfam01565 296591005635 Predicted membrane protein (DUF2069); Region: DUF2069; pfam09842 296591005636 Virulence factor BrkB; Region: Virul_fac_BrkB; cl07918 296591005637 Protein of unknown function (DUF3606); Region: DUF3606; pfam12244 296591005638 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 296591005639 catalytic residues [active] 296591005640 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 296591005641 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 296591005642 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 296591005643 O-acetylhomoserine aminocarboxypropyltransferase; Validated; Region: PRK08134 296591005644 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 296591005645 homodimer interface [polypeptide binding]; other site 296591005646 substrate-cofactor binding pocket; other site 296591005647 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591005648 catalytic residue [active] 296591005649 FOG: CBS domain [General function prediction only]; Region: COG0517 296591005650 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 296591005651 Peptidase inhibitor I9; Region: Inhibitor_I9; pfam05922 296591005652 Subtilisin-like serine proteases [Posttranslational modification, protein turnover, chaperones]; Region: AprE; COG1404 296591005653 Peptidase S8 family domain in ProteinaseK-like proteins; Region: Peptidases_S8_PCSK9_ProteinaseK_like; cd04077 296591005654 calcium binding site 2 [ion binding]; other site 296591005655 active site 296591005656 catalytic triad [active] 296591005657 calcium binding site 1 [ion binding]; other site 296591005658 polyhydroxyalkanoate depolymerase, intracellular; Region: PHB_depoly_PhaZ; TIGR01849 296591005659 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 296591005660 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 296591005661 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 296591005662 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 296591005663 putative N-terminal domain interface [polypeptide binding]; other site 296591005664 putative dimer interface [polypeptide binding]; other site 296591005665 putative substrate binding pocket (H-site) [chemical binding]; other site 296591005666 Cupin domain; Region: Cupin_2; cl17218 296591005667 Chorismate synthase [Amino acid transport and metabolism]; Region: AroC; COG0082 296591005668 Chorismase synthase, the enzyme catalyzing the final step of the shikimate pathway; Region: Chorismate_synthase; cd07304 296591005669 Tetramer interface [polypeptide binding]; other site 296591005670 active site 296591005671 FMN-binding site [chemical binding]; other site 296591005672 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 296591005673 EamA-like transporter family; Region: EamA; pfam00892 296591005674 EamA-like transporter family; Region: EamA; pfam00892 296591005675 Predicted metal-binding integral membrane protein (DUF2182); Region: DUF2182; pfam09948 296591005676 Protein of unknown function (DUF1326); Region: DUF1326; cl02375 296591005677 beta-ketoadipate pathway transcriptional regulators, PcaR/PcaU/PobR family; Region: pcaR_pcaU; TIGR02431 296591005678 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 296591005679 Bacterial transcriptional regulator; Region: IclR; pfam01614 296591005680 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 296591005681 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 296591005682 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 296591005683 NAD(P) binding site [chemical binding]; other site 296591005684 shikimate binding site; other site 296591005685 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 296591005686 Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily; Region: PBP1_ABC_transporter_LIVBP_like; cd06268 296591005687 ligand binding site [chemical binding]; other site 296591005688 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 296591005689 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 296591005690 TM-ABC transporter signature motif; other site 296591005691 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 296591005692 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 296591005693 TM-ABC transporter signature motif; other site 296591005694 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 296591005695 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 296591005696 Walker A/P-loop; other site 296591005697 ATP binding site [chemical binding]; other site 296591005698 Q-loop/lid; other site 296591005699 ABC transporter signature motif; other site 296591005700 Walker B; other site 296591005701 D-loop; other site 296591005702 H-loop/switch region; other site 296591005703 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 296591005704 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 296591005705 Walker A/P-loop; other site 296591005706 ATP binding site [chemical binding]; other site 296591005707 Q-loop/lid; other site 296591005708 ABC transporter signature motif; other site 296591005709 Walker B; other site 296591005710 D-loop; other site 296591005711 H-loop/switch region; other site 296591005712 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 296591005713 dimer interface [polypeptide binding]; other site 296591005714 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 296591005715 active site 296591005716 Xylose isomerase-like TIM barrel; Region: AP_endonuc_2; pfam01261 296591005717 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 296591005718 Lyase; Region: Lyase_1; pfam00206 296591005719 tetramer interface [polypeptide binding]; other site 296591005720 active site 296591005721 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 296591005722 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 296591005723 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 296591005724 hypothetical protein; Provisional; Region: PRK09256 296591005725 Protein chain release factor B [Translation, ribosomal structure and biogenesis]; Region: PrfB; COG1186 296591005726 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591005727 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591005728 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 296591005729 putative effector binding pocket; other site 296591005730 dimerization interface [polypeptide binding]; other site 296591005731 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 296591005732 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 296591005733 putative active site [active] 296591005734 metal binding site [ion binding]; metal-binding site 296591005735 Predicted esterase [General function prediction only]; Region: COG0400 296591005736 putative hydrolase; Provisional; Region: PRK11460 296591005737 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 296591005738 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 296591005739 active site pocket [active] 296591005740 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 296591005741 methyl indole-3-acetate methyltransferase; Region: PLN02211; cl17657 296591005742 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 296591005743 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 296591005744 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 296591005745 glycine dehydrogenase; Provisional; Region: PRK05367 296591005746 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 296591005747 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 296591005748 catalytic residue [active] 296591005749 Glycine cleavage system P-protein, alpha- and beta-subunits. This family consists of Glycine cleavage system P-proteins EC:1.4.4.2 from bacterial, mammalian and plant sources. The P protein is part of the glycine decarboxylase multienzyme complex EC:2.1; Region: GDC-P; cd00613 296591005750 tetramer interface [polypeptide binding]; other site 296591005751 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591005752 catalytic residue [active] 296591005753 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 296591005754 lipoyl attachment site [posttranslational modification]; other site 296591005755 glycine cleavage system aminomethyltransferase T; Provisional; Region: gcvT; PRK13579 296591005756 Glycine cleavage T-protein C-terminal barrel domain; Region: GCV_T_C; pfam08669 296591005757 DctM-like transporters; Region: DctM; pfam06808 296591005758 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 296591005759 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 296591005760 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 296591005761 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 296591005762 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 296591005763 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591005764 NAD(P) binding site [chemical binding]; other site 296591005765 active site 296591005766 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 296591005767 Acyltransferase family; Region: Acyl_transf_3; pfam01757 296591005768 transcriptional regulator EpsA; Region: EpsA; TIGR03020 296591005769 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 296591005770 DNA binding residues [nucleotide binding] 296591005771 dimerization interface [polypeptide binding]; other site 296591005772 Undecaprenyl-phosphate glucose phosphotransferase; Region: WcaJ_sugtrans; TIGR03023 296591005773 Bacterial sugar transferase; Region: Bac_transf; pfam02397 296591005774 exopolysaccharide biosynthesis operon protein EpsL; Region: EpsL; TIGR03014 296591005775 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 296591005776 polysaccharide export protein EpsE; Region: EpsE; TIGR03028 296591005777 SLBB domain; Region: SLBB; pfam10531 296591005778 chain length determinant protein EpsF; Region: EpsF; TIGR03017 296591005779 Chain length determinant protein; Region: Wzz; cl15801 296591005780 chain length determinant protein tyrosine kinase EpsG; Region: EpsG; TIGR03029 296591005781 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 296591005782 Predicted integral membrane protein [Function unknown]; Region: COG5652 296591005783 The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common...; Region: Glyco_transf_WecG_TagA; cd06533 296591005784 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 296591005785 trimer interface [polypeptide binding]; other site 296591005786 active site 296591005787 substrate binding site [chemical binding]; other site 296591005788 CoA binding site [chemical binding]; other site 296591005789 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 296591005790 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591005791 NAD(P) binding site [chemical binding]; other site 296591005792 active site 296591005793 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 296591005794 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 296591005795 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 296591005796 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 296591005797 Predicted acyltransferases [Lipid metabolism]; Region: COG1835 296591005798 Glycosyltransferase like family 2; Region: Glyco_tranf_2_3; pfam13641 296591005799 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 296591005800 active site 296591005801 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 296591005802 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 296591005803 active site 296591005804 O-Antigen ligase; Region: Wzy_C; pfam04932 296591005805 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_tuaB_like; cd13127 296591005806 UDP-glucose 4-epimerase; Region: PLN02240 296591005807 UDP-glucose 4 epimerase, subgroup 1, extended (e) SDRs; Region: UDP_G4E_1_SDR_e; cd05247 296591005808 NAD binding site [chemical binding]; other site 296591005809 homodimer interface [polypeptide binding]; other site 296591005810 active site 296591005811 substrate binding site [chemical binding]; other site 296591005812 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 296591005813 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 296591005814 Ferredoxin-like protein [Energy production and conversion]; Region: FixX; COG2440 296591005815 short chain dehydrogenase; Provisional; Region: PRK06949 296591005816 classical (c) SDRs; Region: SDR_c; cd05233 296591005817 NAD(P) binding site [chemical binding]; other site 296591005818 active site 296591005819 EamA-like transporter family; Region: EamA; pfam00892 296591005820 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 296591005821 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 296591005822 active site 296591005823 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 296591005824 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 296591005825 Catalase-like heme-binding proteins and protein domains; Region: catalase_like; cl09506 296591005826 Carboxymuconolactone decarboxylase family; Region: CMD; cl00460 296591005827 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 296591005828 PAS domain; Region: PAS_9; pfam13426 296591005829 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 296591005830 putative active site [active] 296591005831 heme pocket [chemical binding]; other site 296591005832 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 296591005833 DNA binding residues [nucleotide binding] 296591005834 dimerization interface [polypeptide binding]; other site 296591005835 Acyl CoA:acetate/3-ketoacid CoA transferase, alpha subunit [Lipid metabolism]; Region: AtoD; COG1788 296591005836 3-oxoacid CoA-transferase, B subunit; Region: pcaJ_scoB_fam; TIGR02428 296591005837 MarR family; Region: MarR_2; cl17246 296591005838 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 296591005839 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 296591005840 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 296591005841 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 296591005842 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 296591005843 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 296591005844 FMN-binding pocket [chemical binding]; other site 296591005845 flavin binding motif; other site 296591005846 phosphate binding motif [ion binding]; other site 296591005847 beta-alpha-beta structure motif; other site 296591005848 NAD binding pocket [chemical binding]; other site 296591005849 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 296591005850 catalytic loop [active] 296591005851 iron binding site [ion binding]; other site 296591005852 Rieske non-heme iron oxygenase (RO) family, Phthalate 4,5-dioxygenase (PhDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of PhDO and similar proteins including 3-chlorobenzoate 3; Region: Rieske_RO_Alpha_PhDO_like; cd03479 296591005853 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 296591005854 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 296591005855 hydrophobic ligand binding site; other site 296591005856 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591005857 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 296591005858 EamA-like transporter family; Region: EamA; pfam00892 296591005859 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 296591005860 Methyltransferase domain; Region: Methyltransf_23; pfam13489 296591005861 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 296591005862 S-adenosylmethionine binding site [chemical binding]; other site 296591005863 Winged helix-turn helix; Region: HTH_29; pfam13551 296591005864 RelB antitoxin; Region: RelB; cl01171 296591005865 GIY-YIG domain of uncharacterized hypothetical protein found in phycodnavirus PBCV-1 DNA virus, T. thermophila Tlr element eoncoding protein Tlr8p, and similar proteins found in bacteria; Region: GIY-YIG_HE_Tlr8p_PBC-V_like; cd10443 296591005866 GIY-YIG motif/motif A; other site 296591005867 putative active site [active] 296591005868 putative metal binding site [ion binding]; other site 296591005869 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 296591005870 Ligand Binding Site [chemical binding]; other site 296591005871 Transposase domain (DUF772); Region: DUF772; pfam05598 296591005872 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 296591005873 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 296591005874 PLD-like domain; Region: PLDc_2; pfam13091 296591005875 putative active site [active] 296591005876 catalytic site [active] 296591005877 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 296591005878 non-specific DNA binding site [nucleotide binding]; other site 296591005879 salt bridge; other site 296591005880 sequence-specific DNA binding site [nucleotide binding]; other site 296591005881 Domain of unknown function (DUF955); Region: DUF955; cl01076 296591005882 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 296591005883 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 296591005884 Integrase core domain; Region: rve; pfam00665 296591005885 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 296591005886 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 296591005887 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 296591005888 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 296591005889 Walker A motif; other site 296591005890 ATP binding site [chemical binding]; other site 296591005891 Walker B motif; other site 296591005892 HsdM N-terminal domain; Region: HsdM_N; pfam12161 296591005893 N-6 DNA Methylase; Region: N6_Mtase; pfam02384 296591005894 Methyltransferase domain; Region: Methyltransf_26; pfam13659 296591005895 Restriction endonuclease S subunits [Defense mechanisms]; Region: HsdS; COG0732 296591005896 GIY-YIG domain of uncharacterized hypothetical protein found in bacteria and archaea; Region: GIY-YIG_unchar_2; cd10447 296591005897 GIY-YIG motif/motif A; other site 296591005898 putative active site [active] 296591005899 putative metal binding site [ion binding]; other site 296591005900 Domain of unknown function (DUF4357); Region: DUF4357; pfam14267 296591005901 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]; Region: COG0610 296591005902 Type I restriction enzyme R protein N terminus (HSDR_N); Region: HSDR_N; pfam04313 296591005903 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 296591005904 ATP binding site [chemical binding]; other site 296591005905 putative Mg++ binding site [ion binding]; other site 296591005906 Domain of unknown function (DUF3387); Region: DUF3387; pfam11867 296591005907 2'-5' RNA ligase; Region: 2_5_ligase; TIGR02258 296591005908 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 296591005909 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 296591005910 Protein of unknown function (DUF4011); Region: DUF4011; pfam13195 296591005911 Part of AAA domain; Region: AAA_19; pfam13245 296591005912 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 296591005913 AAA domain; Region: AAA_12; pfam13087 296591005914 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 296591005915 putative active site [active] 296591005916 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 296591005917 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 296591005918 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 296591005919 active site 296591005920 DNA binding site [nucleotide binding] 296591005921 Int/Topo IB signature motif; other site 296591005922 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 296591005923 Peptidase propeptide and YPEB domain; Region: PepSY; pfam03413 296591005924 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 296591005925 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 296591005926 active site 296591005927 phosphorylation site [posttranslational modification] 296591005928 intermolecular recognition site; other site 296591005929 dimerization interface [polypeptide binding]; other site 296591005930 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 296591005931 DNA binding site [nucleotide binding] 296591005932 sensor protein PhoQ; Provisional; Region: PRK10815 296591005933 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 296591005934 ATP binding site [chemical binding]; other site 296591005935 Mg2+ binding site [ion binding]; other site 296591005936 G-X-G motif; other site 296591005937 Protein of unknown function (DUF3620); Region: DUF3620; cl02233 296591005938 cytosine deaminase; Validated; Region: PRK07572 296591005939 Bacterial cytosine deaminase and related metal-dependent hydrolases. Cytosine deaminases (CDs) catalyze the deamination of cytosine, producing uracil and ammonia. They play an important role in pyrimidine salvage. CDs are present in prokaryotes and fungi; Region: Bact_CD; cd01293 296591005940 active site 296591005941 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 296591005942 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 296591005943 TPR repeat; Region: TPR_11; pfam13414 296591005944 binding surface 296591005945 TPR motif; other site 296591005946 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 296591005947 active site 296591005948 Protein of unknown function (DUF1688); Region: DUF1688; pfam07958 296591005949 hypothetical protein; Validated; Region: PRK07198 296591005950 GTP cyclohydrolase N terminal; Region: GTP_CH_N; pfam12471 296591005951 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 296591005952 dimerization interface [polypeptide binding]; other site 296591005953 active site 296591005954 Bacterial protein of unknown function (DUF853); Region: DUF853; pfam05872 296591005955 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 296591005956 Walker A motif; other site 296591005957 ATP binding site [chemical binding]; other site 296591005958 hypothetical protein; Validated; Region: PRK00110 296591005959 phosphoribosylamine--glycine ligase; Provisional; Region: PRK00885 296591005960 Phosphoribosylglycinamide synthetase, N domain; Region: GARS_N; pfam02844 296591005961 Phosphoribosylglycinamide synthetase, ATP-grasp (A) domain; Region: GARS_A; pfam01071 296591005962 Phosphoribosylglycinamide synthetase, C domain; Region: GARS_C; pfam02843 296591005963 coproporphyrinogen III oxidase; Provisional; Region: PRK05330 296591005964 Coproporphyrinogen III oxidase; Region: Coprogen_oxidas; pfam01218 296591005965 nicotinic acid mononucleotide adenylyltransferase; Provisional; Region: nadD; PRK00071 296591005966 Nicotinamide/nicotinate mononucleotide adenylyltransferase; Region: NMNAT; cd02165 296591005967 active site 296591005968 (T/H)XGH motif; other site 296591005969 iojap-like ribosome-associated protein; Region: iojap_ybeB; TIGR00090 296591005970 rRNA large subunit methyltransferase; Provisional; Region: PRK00103 296591005971 Maf-like protein; Region: Maf; pfam02545 296591005972 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 296591005973 active site 296591005974 dimer interface [polypeptide binding]; other site 296591005975 ribonuclease G; Provisional; Region: PRK11712 296591005976 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 296591005977 homodimer interface [polypeptide binding]; other site 296591005978 oligonucleotide binding site [chemical binding]; other site 296591005979 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 296591005980 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 296591005981 putative active site [active] 296591005982 putative metal binding site [ion binding]; other site 296591005983 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 296591005984 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 296591005985 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 296591005986 active site 296591005987 lipid A export permease/ATP-binding protein MsbA; Region: MsbA_lipidA; TIGR02203 296591005988 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 296591005989 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 296591005990 Walker A/P-loop; other site 296591005991 ATP binding site [chemical binding]; other site 296591005992 Q-loop/lid; other site 296591005993 ABC transporter signature motif; other site 296591005994 Walker B; other site 296591005995 D-loop; other site 296591005996 H-loop/switch region; other site 296591005997 O-Antigen ligase; Region: Wzy_C; pfam04932 296591005998 ADP-heptose:LPS heptosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaF; COG0859 296591005999 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 296591006000 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 296591006001 UDP-glucose LOS-beta-1,4 glucosyltransferase is required for biosynthesis of lipooligosaccharide; Region: Beta4Glucosyltransferase; cd02511 296591006002 putative metal binding site; other site 296591006003 translocation protein TolB; Provisional; Region: tolB; PRK02889 296591006004 TolB amino-terminal domain; Region: TolB_N; pfam04052 296591006005 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 296591006006 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 296591006007 WD40-like Beta Propeller Repeat; Region: PD40; pfam07676 296591006008 peptidoglycan-associated outer membrane lipoprotein; Provisional; Region: PRK10802 296591006009 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cd07185 296591006010 ligand binding site [chemical binding]; other site 296591006011 tol-pal system protein YbgF; Region: tol_pal_ybgF; TIGR02795 296591006012 Tetratricopeptide repeat; Region: TPR_6; pfam13174 296591006013 Predicted transporter component [General function prediction only]; Region: COG2391 296591006014 Sulphur transport; Region: Sulf_transp; pfam04143 296591006015 Dinucleotide-utilizing enzymes involved in molybdopterin and thiamine biosynthesis family 1 [Coenzyme metabolism]; Region: COG1179 296591006016 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 296591006017 putative ATP binding site [chemical binding]; other site 296591006018 putative substrate interface [chemical binding]; other site 296591006019 putative ABC transporter ATP-binding protein; Provisional; Region: PRK10636 296591006020 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 296591006021 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 296591006022 ABC transporter; Region: ABC_tran_2; pfam12848 296591006023 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 296591006024 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 296591006025 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 296591006026 S-adenosylmethionine binding site [chemical binding]; other site 296591006027 succinyl-diaminopimelate desuccinylase; Reviewed; Region: PRK13009 296591006028 M20 Peptidase proteobacterial DapE encoded N-succinyl-L,L-diaminopimelic acid desuccinylase; Region: M20_DapE_proteobac; cd03891 296591006029 metal binding site [ion binding]; metal-binding site 296591006030 dimer interface [polypeptide binding]; other site 296591006031 Tfp pilus assembly protein, ATPase PilU [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilU; COG5008 296591006032 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 296591006033 Walker A motif; other site 296591006034 ATP binding site [chemical binding]; other site 296591006035 Walker B motif; other site 296591006036 2,3,4,5-tetrahydropyridine-2,6-carboxylate N-succinyltransferase; Provisional; Region: dapD; PRK11830 296591006037 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 296591006038 active site 296591006039 substrate binding site [chemical binding]; other site 296591006040 trimer interface [polypeptide binding]; other site 296591006041 CoA binding site [chemical binding]; other site 296591006042 succinyldiaminopimelate transaminase; Provisional; Region: PRK09147 296591006043 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 296591006044 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591006045 homodimer interface [polypeptide binding]; other site 296591006046 catalytic residue [active] 296591006047 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 296591006048 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591006049 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 296591006050 dimerization interface [polypeptide binding]; other site 296591006051 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 296591006052 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 296591006053 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 296591006054 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 296591006055 substrate binding pocket [chemical binding]; other site 296591006056 membrane-bound complex binding site; other site 296591006057 hinge residues; other site 296591006058 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 296591006059 Helix-turn-helix domain, rpiR family; Region: HTH_6; pfam01418 296591006060 Transcriptional regulators [Transcription]; Region: RpiR; COG1737 296591006061 RpiR-like protein. RpiR contains a SIS (Sugar ISomerase) domain, which is found in many phosphosugar isomerases and phosphosugar binding proteins. In E. coli, rpiR negatively regulates the expression of rpiB gene. Both rpiB and rpiA are ribose phosphate...; Region: SIS_RpiR; cd05013 296591006062 putative active site [active] 296591006063 hypothetical protein; Provisional; Region: PRK07483 296591006064 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 296591006065 inhibitor-cofactor binding pocket; inhibition site 296591006066 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591006067 catalytic residue [active] 296591006068 TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]; Region: Imp; COG2358 296591006069 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 296591006070 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 296591006071 TRAP-type uncharacterized transport system, fused permease components [General function prediction only]; Region: COG4666 296591006072 Domain of unknown function (DUF3394); Region: DUF3394; pfam11874 296591006073 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 296591006074 RNA binding surface [nucleotide binding]; other site 296591006075 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 296591006076 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 296591006077 Histidine kinase, Adenylyl cyclase, Methyl-accepting protein, and Phosphatase (HAMP) domain. HAMP is a signaling domain which occurs in a wide variety of signaling proteins, many of which are bacterial. The HAMP domain consists of two alpha helices...; Region: HAMP; cl01054 296591006078 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 296591006079 dimer interface [polypeptide binding]; other site 296591006080 phosphorylation site [posttranslational modification] 296591006081 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 296591006082 ATP binding site [chemical binding]; other site 296591006083 Mg2+ binding site [ion binding]; other site 296591006084 G-X-G motif; other site 296591006085 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 296591006086 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 296591006087 active site 296591006088 phosphorylation site [posttranslational modification] 296591006089 intermolecular recognition site; other site 296591006090 dimerization interface [polypeptide binding]; other site 296591006091 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 296591006092 DNA binding site [nucleotide binding] 296591006093 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591006094 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 296591006095 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 296591006096 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591006097 ferrochelatase; Reviewed; Region: hemH; PRK00035 296591006098 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 296591006099 C-terminal domain interface [polypeptide binding]; other site 296591006100 active site 296591006101 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 296591006102 active site 296591006103 N-terminal domain interface [polypeptide binding]; other site 296591006104 flavin mononucleotide phosphatase; Provisional; Region: PRK10748 296591006105 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 296591006106 motif II; other site 296591006107 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 296591006108 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 296591006109 putative C-terminal domain interface [polypeptide binding]; other site 296591006110 putative GSH binding site (G-site) [chemical binding]; other site 296591006111 putative dimer interface [polypeptide binding]; other site 296591006112 C-terminal, alpha helical domain of an unknown subfamily 8 of Glutathione S-transferases; Region: GST_C_8; cd03207 296591006113 dimer interface [polypeptide binding]; other site 296591006114 N-terminal domain interface [polypeptide binding]; other site 296591006115 putative substrate binding pocket (H-site) [chemical binding]; other site 296591006116 squalene-associated FAD-dependent desaturase; Region: HpnE; TIGR03467 296591006117 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 296591006118 catalytic residues [active] 296591006119 substrate binding pocket [chemical binding]; other site 296591006120 substrate-Mg2+ binding site; other site 296591006121 aspartate-rich region 1; other site 296591006122 aspartate-rich region 2; other site 296591006123 Trans-Isoprenyl Diphosphate Synthases, head-to-head; Region: Trans_IPPS_HH; cd00683 296591006124 active site lid residues [active] 296591006125 substrate binding pocket [chemical binding]; other site 296591006126 catalytic residues [active] 296591006127 substrate-Mg2+ binding site; other site 296591006128 aspartate-rich region 1; other site 296591006129 aspartate-rich region 2; other site 296591006130 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591006131 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591006132 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 296591006133 dimerization interface [polypeptide binding]; other site 296591006134 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 296591006135 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 296591006136 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 296591006137 putative PBP binding loops; other site 296591006138 ABC-ATPase subunit interface; other site 296591006139 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 296591006140 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 296591006141 dimer interface [polypeptide binding]; other site 296591006142 conserved gate region; other site 296591006143 putative PBP binding loops; other site 296591006144 ABC-ATPase subunit interface; other site 296591006145 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 296591006146 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 296591006147 Walker A/P-loop; other site 296591006148 ATP binding site [chemical binding]; other site 296591006149 Q-loop/lid; other site 296591006150 ABC transporter signature motif; other site 296591006151 Walker B; other site 296591006152 D-loop; other site 296591006153 H-loop/switch region; other site 296591006154 TOBE domain; Region: TOBE; pfam03459 296591006155 ornithine cyclodeaminase; Validated; Region: PRK06141 296591006156 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 296591006157 Agmatinase-like family includes proclavaminic acid amidinohydrolase; Region: Agmatinase_PAH; cd11592 296591006158 agmatinase; Region: agmatinase; TIGR01230 296591006159 oligomer interface [polypeptide binding]; other site 296591006160 putative active site [active] 296591006161 Mn binding site [ion binding]; other site 296591006162 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 296591006163 homotrimer interaction site [polypeptide binding]; other site 296591006164 putative active site [active] 296591006165 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 296591006166 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 296591006167 HlyD family secretion protein; Region: HlyD_3; pfam13437 296591006168 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 296591006169 trigger factor; Provisional; Region: tig; PRK01490 296591006170 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 296591006171 Bacterial trigger factor protein (TF) C-terminus; Region: Trigger_C; pfam05698 296591006172 Protease subunit of ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: ClpP; COG0740 296591006173 Caseinolytic protease (ClpP) is an ATP-dependent, highly conserved serine protease; Region: S14_ClpP_2; cd07017 296591006174 oligomer interface [polypeptide binding]; other site 296591006175 active site residues [active] 296591006176 ATP-dependent protease ATP-binding subunit ClpX; Provisional; Region: clpX; PRK05342 296591006177 ClpX C4-type zinc finger; Region: zf-C4_ClpX; pfam06689 296591006178 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 296591006179 Walker A motif; other site 296591006180 ATP binding site [chemical binding]; other site 296591006181 Walker B motif; other site 296591006182 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; smart01086 296591006183 ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]; Region: Lon; COG0466 296591006184 Found in ATP-dependent protease La (LON); Region: LON; smart00464 296591006185 Found in ATP-dependent protease La (LON); Region: LON; smart00464 296591006186 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 296591006187 Walker A motif; other site 296591006188 ATP binding site [chemical binding]; other site 296591006189 Walker B motif; other site 296591006190 arginine finger; other site 296591006191 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 296591006192 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 296591006193 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 296591006194 MAATS-type transcriptional repressor, C-terminal region; Region: TetR_C_2; pfam08361 296591006195 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 296591006196 HlyD family secretion protein; Region: HlyD_3; pfam13437 296591006197 The (Largely Gram-negative Bacterial) Hydrophobe/Amphiphile Efflux-1 (HAE1) Family; Region: 2A0602; TIGR00915 296591006198 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 296591006199 seadornavirus VP8 protein; Region: seadorna_VP8; TIGR04233 296591006200 Predicted membrane protein [Function unknown]; Region: COG2855 296591006201 Cystathionine beta-lyases/cystathionine gamma-synthases [Amino acid transport and metabolism]; Region: MetC; COG0626 296591006202 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 296591006203 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 296591006204 catalytic residue [active] 296591006205 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591006206 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 296591006207 active site residue [active] 296591006208 Member of the Rhodanese Homology Domain superfamily, repeat 2. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 2nd repeat which does contain the putative catalytic...; Region: 4RHOD_Repeat_2; cd01533 296591006209 active site residue [active] 296591006210 Member of the Rhodanese Homology Domain superfamily, repeat 3. This CD includes putative rhodanese-related sulfurtransferases which contain 4 copies of the Rhodanese Homology Domain. This CD aligns the 3rd repeat which does not contain the putative...; Region: 4RHOD_Repeat_3; cd01534 296591006211 active site residue [active] 296591006212 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 296591006213 active site residue [active] 296591006214 Predicted metal-dependent enzyme of the double-stranded beta helix superfamily [General function prediction only]; Region: COG5553 296591006215 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591006216 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591006217 The C-terminal substrate domain of LysR-like regulator LrhA (LysR homologue A) and that of closely related homologs, contains the type 2 periplasmic binding fold; Region: PBP2_LrhA_like; cd08439 296591006218 putative dimerization interface [polypeptide binding]; other site 296591006219 Permeases of the major facilitator superfamily [General function prediction only]; Region: COG2270 296591006220 glutamate racemase; Provisional; Region: PRK00865 296591006221 class I-fumerate hydratase; Provisional; Region: PLN00133 296591006222 Fumarate hydratase (Fumerase); Region: Fumerase; pfam05681 296591006223 Fumarase C-terminus; Region: Fumerase_C; pfam05683 296591006224 fumarate hydratase; Reviewed; Region: fumC; PRK00485 296591006225 Class II fumarases; Region: Fumarase_classII; cd01362 296591006226 active site 296591006227 tetramer interface [polypeptide binding]; other site 296591006228 hypothetical protein; Provisional; Region: PRK05208 296591006229 acetyl-CoA synthetase; Provisional; Region: PRK00174 296591006230 Acetyl-CoA synthetase (also known as acetate-CoA ligase and acetyl-activating enzyme); Region: ACS; cd05966 296591006231 active site 296591006232 CoA binding site [chemical binding]; other site 296591006233 acyl-activating enzyme (AAE) consensus motif; other site 296591006234 AMP binding site [chemical binding]; other site 296591006235 acetate binding site [chemical binding]; other site 296591006236 Cytochrome c; Region: Cytochrom_C; cl11414 296591006237 dihydroxy-acid dehydratase; Provisional; Region: PRK00911 296591006238 DNA-binding transcriptional activator XapR; Provisional; Region: PRK09986 296591006239 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591006240 The C-terminal substrate binding domain of LysR-type transcriptional regulator, IlvR, involved in the biosynthesis of isoleucine, leucine and valine; contains type 2 periplasmic binding fold; Region: PBP2_IlvR; cd08453 296591006241 putative dimerization interface [polypeptide binding]; other site 296591006242 putative substrate binding pocket [chemical binding]; other site 296591006243 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 296591006244 putative active site [active] 296591006245 putative CoA binding site [chemical binding]; other site 296591006246 nudix motif; other site 296591006247 metal binding site [ion binding]; metal-binding site 296591006248 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 296591006249 HEAT repeats; Region: HEAT_2; pfam13646 296591006250 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 296591006251 binding surface 296591006252 TPR repeat; Region: TPR_11; pfam13414 296591006253 TPR motif; other site 296591006254 TPR repeat; Region: TPR_11; pfam13414 296591006255 phospho-2-dehydro-3-deoxyheptonate aldolase; Provisional; Region: PRK12755 296591006256 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 296591006257 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 296591006258 MarR family; Region: MarR; pfam01047 296591006259 Flavin reductase like domain; Region: Flavin_Reduct; pfam01613 296591006260 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 296591006261 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 296591006262 active site 296591006263 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG2159 296591006264 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 296591006265 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 296591006266 putative substrate translocation pore; other site 296591006267 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 296591006268 Maleylacetate reductase is involved in many aromatic compounds degradation pathways of aerobic microbes; Region: MAR; cd08177 296591006269 active site 296591006270 dimer interface [polypeptide binding]; other site 296591006271 metal binding site [ion binding]; metal-binding site 296591006272 Hydroxyquinol 1,2-dioxygenase (1,2-HQD) catalyzes the ring cleavage of hydroxyquinol (1,2,4-trihydroxybenzene), a intermediate in the degradation of a large variety of aromatic compounds including some polychloro- and nitroaromatic pollutants, to form...; Region: 1,2-HQD; cd03461 296591006273 chlorocatechol 1,2-dioxygenase; Region: chlorocat_1_2; TIGR02465 296591006274 dimer interface [polypeptide binding]; other site 296591006275 active site 296591006276 esterase, PHB depolymerase family; Region: esterase_phb; TIGR01840 296591006277 Prolyl oligopeptidase family; Region: Peptidase_S9; pfam00326 296591006278 Predicted transcriptional regulators containing the CopG/Arc/MetJ DNA-binding domain [Transcription]; Region: COG3609 296591006279 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591006280 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591006281 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_2; cd08427 296591006282 putative dimerization interface [polypeptide binding]; other site 296591006283 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591006284 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 296591006285 Beta-eliminating lyase; Region: Beta_elim_lyase; pfam01212 296591006286 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 296591006287 catalytic residue [active] 296591006288 Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E; Region: GAT1_Peptidase_E; cd03146 296591006289 active site pocket [active] 296591006290 oxyanion hole [active] 296591006291 catalytic triad [active] 296591006292 active site nucleophile [active] 296591006293 KAP family P-loop domain; Region: KAP_NTPase; pfam07693 296591006294 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 296591006295 binding surface 296591006296 Tetratricopeptide repeat; Region: TPR_16; pfam13432 296591006297 TPR motif; other site 296591006298 Uncharacterized conserved protein [Function unknown]; Region: COG5470 296591006299 Uncharacterized conserved protein (DUF2278); Region: DUF2278; pfam10042 296591006300 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 296591006301 S-adenosylmethionine binding site [chemical binding]; other site 296591006302 Protein of unknown function (DUF2889); Region: DUF2889; pfam11136 296591006303 Response regulator receiver domain; Region: Response_reg; pfam00072 296591006304 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 296591006305 active site 296591006306 phosphorylation site [posttranslational modification] 296591006307 intermolecular recognition site; other site 296591006308 dimerization interface [polypeptide binding]; other site 296591006309 Serine phosphatase RsbU, regulator of sigma subunit [Signal transduction mechanisms / Transcription]; Region: RsbU; COG2208 296591006310 Stage II sporulation protein E (SpoIIE); Region: SpoIIE; pfam07228 296591006311 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 296591006312 anti sigma factor interaction site; other site 296591006313 regulatory phosphorylation site [posttranslational modification]; other site 296591006314 Transglycosylase; Region: Transgly; pfam00912 296591006315 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 296591006316 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 296591006317 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 296591006318 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 296591006319 sequence-specific DNA binding site [nucleotide binding]; other site 296591006320 salt bridge; other site 296591006321 Cupin domain; Region: Cupin_2; cl17218 296591006322 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 296591006323 prolipoprotein diacylglyceryl transferase; Reviewed; Region: PRK00052 296591006324 Winged helix-turn helix; Region: HTH_29; pfam13551 296591006325 Helix-turn-helix domain; Region: HTH_28; pfam13518 296591006326 Homeodomain-like domain; Region: HTH_32; pfam13565 296591006327 Winged helix-turn helix; Region: HTH_33; pfam13592 296591006328 DDE superfamily endonuclease; Region: DDE_3; pfam13358 296591006329 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 296591006330 patatin-related protein; Region: TIGR03607 296591006331 Transcriptional regulators [Transcription]; Region: GntR; COG1802 296591006332 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591006333 DNA-binding site [nucleotide binding]; DNA binding site 296591006334 FCD domain; Region: FCD; pfam07729 296591006335 Malonyl-CoA decarboxylase (MCD); Region: MCD; pfam05292 296591006336 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591006337 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 296591006338 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 296591006339 substrate binding site [chemical binding]; other site 296591006340 oxyanion hole (OAH) forming residues; other site 296591006341 trimer interface [polypeptide binding]; other site 296591006342 malonyl-CoA synthase; Validated; Region: PRK07514 296591006343 Malonyl-CoA synthetase (MCS); Region: MCS; cd05941 296591006344 acyl-activating enzyme (AAE) consensus motif; other site 296591006345 active site 296591006346 AMP binding site [chemical binding]; other site 296591006347 CoA binding site [chemical binding]; other site 296591006348 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 296591006349 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 296591006350 putrescine transporter ATP-binding subunit; Provisional; Region: potG; PRK11607 296591006351 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 296591006352 Walker A/P-loop; other site 296591006353 ATP binding site [chemical binding]; other site 296591006354 Q-loop/lid; other site 296591006355 ABC transporter signature motif; other site 296591006356 Walker B; other site 296591006357 D-loop; other site 296591006358 H-loop/switch region; other site 296591006359 TOBE domain; Region: TOBE_2; pfam08402 296591006360 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 296591006361 dimer interface [polypeptide binding]; other site 296591006362 conserved gate region; other site 296591006363 putative PBP binding loops; other site 296591006364 ABC-ATPase subunit interface; other site 296591006365 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 296591006366 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 296591006367 dimer interface [polypeptide binding]; other site 296591006368 conserved gate region; other site 296591006369 putative PBP binding loops; other site 296591006370 ABC-ATPase subunit interface; other site 296591006371 EamA-like transporter family; Region: EamA; pfam00892 296591006372 EamA-like transporter family; Region: EamA; pfam00892 296591006373 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 296591006374 putative active site pocket [active] 296591006375 dimerization interface [polypeptide binding]; other site 296591006376 putative catalytic residue [active] 296591006377 isocitrate lyase; Provisional; Region: PRK15063 296591006378 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 296591006379 tetramer interface [polypeptide binding]; other site 296591006380 active site 296591006381 Mg2+/Mn2+ binding site [ion binding]; other site 296591006382 threonyl-tRNA synthetase; Reviewed; Region: thrS; PRK00413 296591006383 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 296591006384 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 296591006385 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 296591006386 active site 296591006387 dimer interface [polypeptide binding]; other site 296591006388 motif 1; other site 296591006389 motif 2; other site 296591006390 motif 3; other site 296591006391 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 296591006392 anticodon binding site; other site 296591006393 translation initiation factor IF-3; Region: infC; TIGR00168 296591006394 Translation initiation factor IF-3, N-terminal domain; Region: IF3_N; pfam05198 296591006395 Translation initiation factor IF-3, C-terminal domain; Region: IF3_C; pfam00707 296591006396 50S ribosomal protein L35; Reviewed; Region: rpmI; PRK00172 296591006397 Ribosomal protein L20; Region: Ribosomal_L20; cd07026 296591006398 23S rRNA binding site [nucleotide binding]; other site 296591006399 L21 binding site [polypeptide binding]; other site 296591006400 L13 binding site [polypeptide binding]; other site 296591006401 phenylalanyl-tRNA synthetase subunit alpha; Validated; Region: pheS; PRK00488 296591006402 Aminoacyl tRNA synthetase class II, N-terminal domain; Region: Phe_tRNA-synt_N; pfam02912 296591006403 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 296591006404 dimer interface [polypeptide binding]; other site 296591006405 motif 1; other site 296591006406 active site 296591006407 motif 2; other site 296591006408 motif 3; other site 296591006409 phenylalanyl-tRNA synthetase subunit beta; Reviewed; Region: pheT; PRK00629 296591006410 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 296591006411 putative tRNA-binding site [nucleotide binding]; other site 296591006412 B3/4 domain; Region: B3_4; pfam03483 296591006413 tRNA synthetase B5 domain; Region: B5; smart00874 296591006414 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 296591006415 dimer interface [polypeptide binding]; other site 296591006416 motif 1; other site 296591006417 motif 3; other site 296591006418 motif 2; other site 296591006419 Ferredoxin-fold anticodon binding domain; Region: FDX-ACB; smart00896 296591006420 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 296591006421 IHF - DNA interface [nucleotide binding]; other site 296591006422 IHF dimer interface [polypeptide binding]; other site 296591006423 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 296591006424 Helix-Turn-Helix DNA binding domain of putative MlrA-like transcription regulators; Region: HTH_MlrA-like_sg2; cd04765 296591006425 DNA binding residues [nucleotide binding] 296591006426 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_6; cd06233 296591006427 putative active site [active] 296591006428 Zn binding site [ion binding]; other site 296591006429 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 296591006430 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 296591006431 metal binding site [ion binding]; metal-binding site 296591006432 putative dimer interface [polypeptide binding]; other site 296591006433 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 296591006434 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 296591006435 dimer interface [polypeptide binding]; other site 296591006436 conserved gate region; other site 296591006437 putative PBP binding loops; other site 296591006438 ABC-ATPase subunit interface; other site 296591006439 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 296591006440 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_2; cd08498 296591006441 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 296591006442 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 296591006443 dimer interface [polypeptide binding]; other site 296591006444 conserved gate region; other site 296591006445 putative PBP binding loops; other site 296591006446 ABC-ATPase subunit interface; other site 296591006447 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 296591006448 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 296591006449 Walker A/P-loop; other site 296591006450 ATP binding site [chemical binding]; other site 296591006451 Q-loop/lid; other site 296591006452 ABC transporter signature motif; other site 296591006453 Walker B; other site 296591006454 D-loop; other site 296591006455 H-loop/switch region; other site 296591006456 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 296591006457 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 296591006458 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 296591006459 Walker A/P-loop; other site 296591006460 ATP binding site [chemical binding]; other site 296591006461 Q-loop/lid; other site 296591006462 ABC transporter signature motif; other site 296591006463 Walker B; other site 296591006464 D-loop; other site 296591006465 H-loop/switch region; other site 296591006466 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 296591006467 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 296591006468 nudix motif; other site 296591006469 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591006470 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 296591006471 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591006472 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 296591006473 dimerization interface [polypeptide binding]; other site 296591006474 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 296591006475 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 296591006476 DctM-like transporters; Region: DctM; pfam06808 296591006477 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 296591006478 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 296591006479 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 296591006480 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 296591006481 gentisate 1,2-dioxygenase; Region: gentisate_1_2; TIGR02272 296591006482 Cupin domain; Region: Cupin_2; pfam07883 296591006483 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 296591006484 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591006485 salicylate hydroxylase; Provisional; Region: PRK08163 296591006486 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 296591006487 Transcriptional regulators [Transcription]; Region: MarR; COG1846 296591006488 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 296591006489 MarR family; Region: MarR_2; cl17246 296591006490 Antibiotic biosynthesis monooxygenase; Region: ABM; cl10022 296591006491 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 296591006492 2Fe-2S iron-sulfur cluster binding domain. Iron-sulfur proteins play an important role in electron transfer processes and in various enzymatic reactions. The family includes plant and algal ferredoxins, which act as electron carriers in photosynthesis...; Region: fer2; cl00159 296591006493 catalytic loop [active] 296591006494 iron binding site [ion binding]; other site 296591006495 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 296591006496 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 296591006497 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; cl00938 296591006498 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 296591006499 iron-sulfur cluster [ion binding]; other site 296591006500 [2Fe-2S] cluster binding site [ion binding]; other site 296591006501 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 296591006502 hydrophobic ligand binding site; other site 296591006503 Transcriptional regulators [Transcription]; Region: GntR; COG1802 296591006504 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591006505 DNA-binding site [nucleotide binding]; DNA binding site 296591006506 FCD domain; Region: FCD; pfam07729 296591006507 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 296591006508 Prostaglandin dehydrogenases; Region: PGDH; cd05288 296591006509 NAD(P) binding site [chemical binding]; other site 296591006510 substrate binding site [chemical binding]; other site 296591006511 dimer interface [polypeptide binding]; other site 296591006512 GST_N family, Class Zeta 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_Zeta; cd03042 296591006513 maleylacetoacetate isomerase; Region: maiA; TIGR01262 296591006514 C-terminal domain interface [polypeptide binding]; other site 296591006515 GSH binding site (G-site) [chemical binding]; other site 296591006516 putative dimer interface [polypeptide binding]; other site 296591006517 C-terminal, alpha helical domain of Class Zeta Glutathione S-transferases; Region: GST_C_Zeta; cd03191 296591006518 dimer interface [polypeptide binding]; other site 296591006519 N-terminal domain interface [polypeptide binding]; other site 296591006520 maleylacetoacetate (MAA) substrate binding site (H site) [chemical binding]; other site 296591006521 Multicopper polyphenol oxidase (laccase) [Secondary metabolites biosynthesis, transport and catabolism]; Region: yfiH; COG1496 296591006522 Multi-copper polyphenol oxidoreductase laccase; Region: Cu-oxidase_4; cl00650 296591006523 poly(R)-hydroxyalkanoic acid synthase, class I; Region: PHA_synth_I; TIGR01838 296591006524 Poly-beta-hydroxybutyrate polymerase (PhaC) N-terminus; Region: PhaC_N; pfam07167 296591006525 putative acyltransferase; Provisional; Region: PRK05790 296591006526 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 296591006527 dimer interface [polypeptide binding]; other site 296591006528 active site 296591006529 acetyacetyl-CoA reductase; Provisional; Region: PRK12938 296591006530 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 296591006531 NAD(P) binding site [chemical binding]; other site 296591006532 homotetramer interface [polypeptide binding]; other site 296591006533 homodimer interface [polypeptide binding]; other site 296591006534 active site 296591006535 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591006536 Uncharacterized conserved protein [Function unknown]; Region: COG2128 296591006537 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 296591006538 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591006539 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 296591006540 classical (c) SDRs; Region: SDR_c; cd05233 296591006541 NAD(P) binding site [chemical binding]; other site 296591006542 active site 296591006543 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 296591006544 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 296591006545 active site 296591006546 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591006547 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591006548 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 296591006549 putative dimerization interface [polypeptide binding]; other site 296591006550 putative cation:proton antiport protein; Provisional; Region: PRK10669 296591006551 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; cl10482 296591006552 TrkA-N domain; Region: TrkA_N; pfam02254 296591006553 Cupin superfamily (DUF985); Region: Cupin_5; pfam06172 296591006554 Peptidase M14-like domain; uncharacterized subgroup; Region: M14-like_1_6; cd06243 296591006555 putative active site [active] 296591006556 Zn binding site [ion binding]; other site 296591006557 tRNA-dihydrouridine synthase A; Provisional; Region: PRK11815 296591006558 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 296591006559 FMN binding site [chemical binding]; other site 296591006560 active site 296591006561 catalytic residues [active] 296591006562 substrate binding site [chemical binding]; other site 296591006563 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 296591006564 AsnC family; Region: AsnC_trans_reg; pfam01037 296591006565 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 296591006566 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591006567 PrkA family serine protein kinase; Provisional; Region: PRK15455 296591006568 AAA ATPase domain; Region: AAA_16; pfam13191 296591006569 PrkA serine protein kinase C-terminal domain; Region: PrkA; pfam06798 296591006570 hypothetical protein; Provisional; Region: PRK05325 296591006571 SpoVR family protein; Provisional; Region: PRK11767 296591006572 Uncharacterized conserved protein [Function unknown]; Region: SpoVR; COG2719 296591006573 Transcriptional regulators [Transcription]; Region: GntR; COG1802 296591006574 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591006575 DNA-binding site [nucleotide binding]; DNA binding site 296591006576 FCD domain; Region: FCD; pfam07729 296591006577 methylmalonyl-CoA mutase; Reviewed; Region: PRK09426 296591006578 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM) family, Alpha subunit-like subfamily; contains proteins similar to the alpha subunit of Propionbacterium shermanni MCM, as well as human and E. coli MCM. Members of this subfamily contain...; Region: MM_CoA_mutase_alpha_like; cd03679 296591006579 active site 296591006580 substrate binding site [chemical binding]; other site 296591006581 coenzyme B12 binding site [chemical binding]; other site 296591006582 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 296591006583 B12 binding site [chemical binding]; other site 296591006584 cobalt ligand [ion binding]; other site 296591006585 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 296591006586 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 296591006587 Coenzyme A binding pocket [chemical binding]; other site 296591006588 membrane ATPase/protein kinase; Provisional; Region: PRK09435 296591006589 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 296591006590 Walker A; other site 296591006591 Acetyl-CoA carboxylase, carboxyltransferase component (subunits alpha and beta) [Lipid metabolism]; Region: COG4799 296591006592 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 296591006593 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 296591006594 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 296591006595 Pathogenicity locus; Region: Cdd1; pfam11731 296591006596 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 296591006597 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 296591006598 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 296591006599 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 296591006600 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 296591006601 carboxyltransferase (CT) interaction site; other site 296591006602 biotinylation site [posttranslational modification]; other site 296591006603 Methylmalonyl-CoA epimerase (MMCE); Region: MMCE; cd07249 296591006604 dimer interface [polypeptide binding]; other site 296591006605 substrate binding site [chemical binding]; other site 296591006606 metal binding site [ion binding]; metal-binding site 296591006607 D-cysteine desulfhydrase; Validated; Region: PRK03910 296591006608 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 296591006609 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 296591006610 catalytic residue [active] 296591006611 ferredoxin; Provisional; Region: PRK08764 296591006612 Putative Fe-S cluster; Region: FeS; cl17515 296591006613 4Fe-4S binding domain; Region: Fer4; pfam00037 296591006614 Poly-beta-hydroxyalkanoate depolymerase [Lipid metabolism]; Region: DepA; COG4553 296591006615 PHB de-polymerase C-terminus; Region: PHB_depo_C; pfam06850 296591006616 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 296591006617 Catalytic LigB subunit of aromatic ring-opening dioxygenase; Region: LigB; pfam02900 296591006618 putative active site [active] 296591006619 metal binding site [ion binding]; metal-binding site 296591006620 aromatic amino acid aminotransferase; Provisional; Region: PRK09257 296591006621 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 296591006622 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591006623 homodimer interface [polypeptide binding]; other site 296591006624 catalytic residue [active] 296591006625 excinuclease ABC subunit B; Provisional; Region: PRK05298 296591006626 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 296591006627 ATP binding site [chemical binding]; other site 296591006628 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 296591006629 nucleotide binding region [chemical binding]; other site 296591006630 ATP-binding site [chemical binding]; other site 296591006631 Ultra-violet resistance protein B; Region: UvrB; pfam12344 296591006632 UvrB/uvrC motif; Region: UVR; pfam02151 296591006633 iron-sulfur cluster assembly transcription factor IscR; Region: IscR; TIGR02010 296591006634 Rrf2 family protein; Region: rrf2_super; TIGR00738 296591006635 cysteine desulfurase; Provisional; Region: PRK14012 296591006636 cysteine desulfurase NifS; Region: FeS_nifS; TIGR03402 296591006637 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 296591006638 catalytic residue [active] 296591006639 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 296591006640 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 296591006641 trimerization site [polypeptide binding]; other site 296591006642 active site 296591006643 Iron-sulphur cluster biosynthesis; Region: Fe-S_biosyn; cl00400 296591006644 co-chaperone HscB; Provisional; Region: hscB; PRK03578 296591006645 DnaJ domain; Region: DnaJ; pfam00226 296591006646 HSP70 interaction site [polypeptide binding]; other site 296591006647 HSCB C-terminal oligomerisation domain; Region: HSCB_C; pfam07743 296591006648 chaperone protein HscA; Provisional; Region: hscA; PRK05183 296591006649 Nucleotide-binding domain of HscA and similar proteins; Region: HscA_like_NBD; cd10236 296591006650 nucleotide binding site [chemical binding]; other site 296591006651 putative NEF/HSP70 interaction site [polypeptide binding]; other site 296591006652 SBD interface [polypeptide binding]; other site 296591006653 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 296591006654 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 296591006655 catalytic loop [active] 296591006656 iron binding site [ion binding]; other site 296591006657 DNA polymerase III, epsilon subunit, Proteobacterial; Region: dnaQ_proteo; TIGR01406 296591006658 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 296591006659 active site 296591006660 catalytic site [active] 296591006661 substrate binding site [chemical binding]; other site 296591006662 FOG: CBS domain [General function prediction only]; Region: COG0517 296591006663 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_9; cd04622 296591006664 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]; Region: COG1875 296591006665 PIN domain of bacterial Smg6-like homologs with PhoH-like ATPase domains; Region: PIN_PhoHL-ATPase; cd09883 296591006666 putative active site [active] 296591006667 PhoH-like protein; Region: PhoH; pfam02562 296591006668 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 296591006669 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 296591006670 catalytic triad [active] 296591006671 Xcc1710_like family, specific to proteobacteria. Xcc1710 is a hypothetical protein from Xanthomonas campestris pv. campestris str. ATCC 33913, similar to Mth938, a hypothetical protein encoded by the Methanobacterium thermoautotrophicum (Mth) genome; Region: Xcc1710_like; cd05560 296591006672 aminotransferase AlaT; Validated; Region: PRK09265 296591006673 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 296591006674 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591006675 homodimer interface [polypeptide binding]; other site 296591006676 catalytic residue [active] 296591006677 homoserine dehydrogenase; Provisional; Region: PRK06349 296591006678 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 296591006679 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 296591006680 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 296591006681 Threonine synthase [Amino acid transport and metabolism]; Region: ThrC; COG0498 296591006682 Threonine synthase catalyzes the final step of threonine biosynthesis. The conversion of O-phosphohomoserine into threonine and inorganic phosphate is pyridoxal 5'-phosphate dependent. The Thr-synth_1 CD includes members from higher plants; Region: Thr-synth_2; cd01560 296591006683 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591006684 catalytic residue [active] 296591006685 Molybdenum is an essential trace element in the form of molybdenum cofactor (Moco) which is associated with the metabolism of nitrogen, carbon and sulfur by redox active enzymes. In E. coli, the synthesis of Moco involves genes from several loci: moa; Region: MobB; cd03116 296591006686 Walker A motif; other site 296591006687 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 296591006688 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 296591006689 dimer interface [polypeptide binding]; other site 296591006690 putative functional site; other site 296591006691 putative MPT binding site; other site 296591006692 Ubiquitin domain of MoaD-like proteins; Region: MoaD; cd00754 296591006693 MoaE interaction surface [polypeptide binding]; other site 296591006694 MoeB interaction surface [polypeptide binding]; other site 296591006695 thiocarboxylated glycine; other site 296591006696 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 296591006697 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 296591006698 dimer interface [polypeptide binding]; other site 296591006699 active site 296591006700 catalytic residue [active] 296591006701 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 296591006702 MoaE homodimer interface [polypeptide binding]; other site 296591006703 MoaD interaction [polypeptide binding]; other site 296591006704 active site residues [active] 296591006705 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 296591006706 MarR family; Region: MarR; pfam01047 296591006707 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591006708 hypothetical protein; Provisional; Region: PRK07538 296591006709 hypothetical protein; Provisional; Region: PRK07236 296591006710 ATP-dependent chaperone ClpB; Region: chaperone_ClpB; TIGR03346 296591006711 Clp amino terminal domain; Region: Clp_N; pfam02861 296591006712 Clp amino terminal domain; Region: Clp_N; pfam02861 296591006713 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 296591006714 Walker A motif; other site 296591006715 ATP binding site [chemical binding]; other site 296591006716 Walker B motif; other site 296591006717 arginine finger; other site 296591006718 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 296591006719 Walker A motif; other site 296591006720 ATP binding site [chemical binding]; other site 296591006721 Walker B motif; other site 296591006722 arginine finger; other site 296591006723 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 296591006724 FOG: Transposase [DNA replication, recombination, and repair]; Region: COG5659 296591006725 Methyltransferase domain; Region: Methyltransf_23; pfam13489 296591006726 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 296591006727 S-adenosylmethionine binding site [chemical binding]; other site 296591006728 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 296591006729 Ribokinase catalyses the phosphorylation of ribose to ribose-5-phosphate using ATP. This reaction is the first step in the ribose metabolism. It traps ribose within the cell after uptake and also prepares the sugar for use in the synthesis of nucleotides...; Region: ribokinase; cd01174 296591006730 substrate binding site [chemical binding]; other site 296591006731 dimer interface [polypeptide binding]; other site 296591006732 ATP binding site [chemical binding]; other site 296591006733 DctM-like transporters; Region: DctM; pfam06808 296591006734 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 296591006735 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 296591006736 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 296591006737 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 296591006738 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 296591006739 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 296591006740 inhibitor site; inhibition site 296591006741 active site 296591006742 dimer interface [polypeptide binding]; other site 296591006743 catalytic residue [active] 296591006744 Transcriptional regulators [Transcription]; Region: GntR; COG1802 296591006745 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591006746 DNA-binding site [nucleotide binding]; DNA binding site 296591006747 FCD domain; Region: FCD; pfam07729 296591006748 RbsD / FucU transport protein family; Region: RbsD_FucU; cl00809 296591006749 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 296591006750 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 296591006751 active site 296591006752 catalytic tetrad [active] 296591006753 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 296591006754 Amidohydrolase; Region: Amidohydro_2; pfam04909 296591006755 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 296591006756 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 296591006757 Coenzyme A binding pocket [chemical binding]; other site 296591006758 Glycerol uptake facilitator and related permeases (Major Intrinsic Protein Family) [Carbohydrate transport and metabolism]; Region: GlpF; COG0580 296591006759 amphipathic channel; other site 296591006760 Asn-Pro-Ala signature motifs; other site 296591006761 Protein-tyrosine-phosphatase [Signal transduction mechanisms]; Region: Wzb; COG0394 296591006762 Low molecular weight phosphatase family; Region: LMWPc; cd00115 296591006763 active site 296591006764 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; pfam04174 296591006765 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 296591006766 putative DNA binding site [nucleotide binding]; other site 296591006767 putative Zn2+ binding site [ion binding]; other site 296591006768 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 296591006769 ArsC family; Region: ArsC; pfam03960 296591006770 catalytic residues [active] 296591006771 arsenical resistance protein ArsH; Region: resist_ArsH; TIGR02690 296591006772 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 296591006773 Protein of unknown function (DUF1504); Region: DUF1504; pfam07399 296591006774 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 296591006775 Ligand Binding Site [chemical binding]; other site 296591006776 putative mercury resistance protein; Provisional; Region: PRK13747 296591006777 Helix-Turn-Helix DNA binding domain of transcription regulators from the MerR superfamily; Region: HTH_MerR-SF; cl02600 296591006778 DNA binding residues [nucleotide binding] 296591006779 putative mercuric reductase; Provisional; Region: PRK13748 296591006780 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 296591006781 metal-binding site [ion binding] 296591006782 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 296591006783 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 296591006784 putative mercury transport protein MerC; Provisional; Region: PRK13755 296591006785 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 296591006786 metal-binding site [ion binding] 296591006787 putative mercuric transport protein; Provisional; Region: PRK13751 296591006788 putative transcriptional regulator MerR; Provisional; Region: PRK13752 296591006789 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 296591006790 DNA binding residues [nucleotide binding] 296591006791 dimer interface [polypeptide binding]; other site 296591006792 mercury binding site [ion binding]; other site 296591006793 Zn(II)-responsive transcriptional regulator; Region: ZntR; TIGR02043 296591006794 Helix-Turn-Helix DNA binding domain of Heavy Metal Resistance transcription regulators; Region: HTH_HMRTR; cd04770 296591006795 DNA binding residues [nucleotide binding] 296591006796 dimer interface [polypeptide binding]; other site 296591006797 metal binding site [ion binding]; metal-binding site 296591006798 Thioredoxin domain; Region: Thioredoxin_3; pfam13192 296591006799 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 296591006800 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 296591006801 substrate binding pocket [chemical binding]; other site 296591006802 membrane-bound complex binding site; other site 296591006803 hinge residues; other site 296591006804 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: COG3638 296591006805 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 296591006806 Walker A/P-loop; other site 296591006807 ATP binding site [chemical binding]; other site 296591006808 Q-loop/lid; other site 296591006809 ABC transporter signature motif; other site 296591006810 Walker B; other site 296591006811 D-loop; other site 296591006812 H-loop/switch region; other site 296591006813 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 296591006814 phosphonate ABC transporter, permease protein PhnE; Region: PhnE; TIGR01097 296591006815 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 296591006816 dimer interface [polypeptide binding]; other site 296591006817 ABC-ATPase subunit interface; other site 296591006818 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 296591006819 Acetyltransferase (GNAT) domain; Region: Acetyltransf_5; cl17496 296591006820 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 296591006821 Predicted phosphohydrolases [General function prediction only]; Region: Icc; COG1409 296591006822 putative active site [active] 296591006823 putative metal binding site [ion binding]; other site 296591006824 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 296591006825 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 296591006826 Polyphosphate kinase N-terminal domain; Region: PP_kinase_N; pfam13089 296591006827 polyphosphate kinase 1; Region: poly_P_kin; TIGR03705 296591006828 Polyphosphate kinase middle domain; Region: PP_kinase; pfam02503 296591006829 Catalytic domain of phospholipase D superfamily proteins; Region: PLDc_SF; cl15239 296591006830 putative active site [active] 296591006831 catalytic site [active] 296591006832 Catalytic C-terminal domain, second repeat, of Pseudomonas aeruginosa polyphosphate kinase 1 and similar proteins; Region: PLDc_PaPPK1_C2_like; cd09168 296591006833 putative domain interface [polypeptide binding]; other site 296591006834 putative active site [active] 296591006835 catalytic site [active] 296591006836 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 296591006837 catalytic core [active] 296591006838 Exopolyphosphatase [Nucleotide transport and metabolism / Inorganic ion transport and metabolism]; Region: GppA; COG0248 296591006839 Ppx/GppA phosphatase family; Region: Ppx-GppA; pfam02541 296591006840 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 296591006841 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 296591006842 Secreted and surface protein containing fasciclin-like repeats [Cell envelope biogenesis, outer membrane]; Region: COG2335 296591006843 Fasciclin domain; Region: Fasciclin; pfam02469 296591006844 PBP superfamily domain; Region: PBP_like_2; cl17296 296591006845 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 296591006846 dimer interface [polypeptide binding]; other site 296591006847 conserved gate region; other site 296591006848 putative PBP binding loops; other site 296591006849 ABC-ATPase subunit interface; other site 296591006850 phosphate transporter permease subunit PtsA; Provisional; Region: pstA; PRK11268 296591006851 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 296591006852 dimer interface [polypeptide binding]; other site 296591006853 conserved gate region; other site 296591006854 putative PBP binding loops; other site 296591006855 ABC-ATPase subunit interface; other site 296591006856 phosphate transporter ATP-binding protein; Provisional; Region: pstB; PRK10744 296591006857 ATP-binding cassette domain of the phosphate transport system; Region: ABC_PstB_phosphate_transporter; cd03260 296591006858 Walker A/P-loop; other site 296591006859 ATP binding site [chemical binding]; other site 296591006860 Q-loop/lid; other site 296591006861 ABC transporter signature motif; other site 296591006862 Walker B; other site 296591006863 D-loop; other site 296591006864 H-loop/switch region; other site 296591006865 transcriptional regulator PhoU; Provisional; Region: PRK11115 296591006866 PhoU domain; Region: PhoU; pfam01895 296591006867 PhoU domain; Region: PhoU; pfam01895 296591006868 phosphate regulon transcriptional regulatory protein PhoB; Region: PhoB; TIGR02154 296591006869 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 296591006870 active site 296591006871 phosphorylation site [posttranslational modification] 296591006872 intermolecular recognition site; other site 296591006873 dimerization interface [polypeptide binding]; other site 296591006874 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 296591006875 DNA binding site [nucleotide binding] 296591006876 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 296591006877 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 296591006878 putative active site [active] 296591006879 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 296591006880 dimer interface [polypeptide binding]; other site 296591006881 phosphorylation site [posttranslational modification] 296591006882 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 296591006883 ATP binding site [chemical binding]; other site 296591006884 Mg2+ binding site [ion binding]; other site 296591006885 G-X-G motif; other site 296591006886 Subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins similar to Vibrio cholerae NorM; Region: MATE_NorM_like; cd13131 296591006887 cation binding site [ion binding]; other site 296591006888 50S ribosomal protein L31 type B; Reviewed; Region: rpmE2; PRK01678 296591006889 transcription termination factor Rho; Provisional; Region: rho; PRK09376 296591006890 Rho termination factor, N-terminal domain; Region: Rho_N; smart00959 296591006891 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 296591006892 RNA binding site [nucleotide binding]; other site 296591006893 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 296591006894 multimer interface [polypeptide binding]; other site 296591006895 Walker A motif; other site 296591006896 ATP binding site [chemical binding]; other site 296591006897 Walker B motif; other site 296591006898 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 296591006899 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 296591006900 catalytic residues [active] 296591006901 double-strand break repair protein AddB, alphaproteobacterial type; Region: addB_alphas; TIGR02786 296591006902 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 296591006903 ATP-dependent exoDNAse (exonuclease V) beta subunit (contains helicase and exonuclease domains) [DNA replication, recombination, and repair]; Region: RecB; COG1074 296591006904 Family description; Region: UvrD_C_2; pfam13538 296591006905 PD-(D/E)XK nuclease superfamily; Region: PDDEXK_1; pfam12705 296591006906 uncharacterized flavoprotein, PP_4765 family; Region: flavo_PP4765; TIGR03862 296591006907 DNA polymerase III subunits gamma and tau; Provisional; Region: PRK14951 296591006908 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 296591006909 Walker A motif; other site 296591006910 ATP binding site [chemical binding]; other site 296591006911 Walker B motif; other site 296591006912 arginine finger; other site 296591006913 DNA polymerase III subunits gamma and tau domain III; Region: DNA_pol3_gamma3; pfam12169 296591006914 hypothetical protein; Validated; Region: PRK00153 296591006915 recombination protein RecR; Reviewed; Region: recR; PRK00076 296591006916 RecR protein; Region: RecR; pfam02132 296591006917 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 296591006918 putative active site [active] 296591006919 putative metal-binding site [ion binding]; other site 296591006920 tetramer interface [polypeptide binding]; other site 296591006921 MAPEG family; Region: MAPEG; cl09190 296591006922 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 296591006923 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 296591006924 substrate binding pocket [chemical binding]; other site 296591006925 membrane-bound complex binding site; other site 296591006926 hinge residues; other site 296591006927 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 296591006928 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 296591006929 Walker A/P-loop; other site 296591006930 ATP binding site [chemical binding]; other site 296591006931 Q-loop/lid; other site 296591006932 ABC transporter signature motif; other site 296591006933 Walker B; other site 296591006934 D-loop; other site 296591006935 H-loop/switch region; other site 296591006936 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 296591006937 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 296591006938 dimer interface [polypeptide binding]; other site 296591006939 conserved gate region; other site 296591006940 putative PBP binding loops; other site 296591006941 ABC-ATPase subunit interface; other site 296591006942 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591006943 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 296591006944 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 296591006945 N-acetyl-D-glucosamine binding site [chemical binding]; other site 296591006946 catalytic residue [active] 296591006947 FOG: LysM repeat [Cell envelope biogenesis, outer membrane]; Region: LytE; COG1388 296591006948 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 296591006949 Methyltransferase domain; Region: Methyltransf_11; pfam08241 296591006950 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 296591006951 RNase HI family found mainly in prokaryotes; Region: RNase_HI_prokaryote_like; cd09278 296591006952 RNA/DNA hybrid binding site [nucleotide binding]; other site 296591006953 active site 296591006954 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 296591006955 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 296591006956 HlyD family secretion protein; Region: HlyD_3; pfam13437 296591006957 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 296591006958 ThiS family; Region: ThiS; pfam02597 296591006959 Molybdopterin biosynthesis enzyme [Coenzyme metabolism]; Region: MoeA; COG0303 296591006960 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 296591006961 dimer interface [polypeptide binding]; other site 296591006962 putative functional site; other site 296591006963 putative MPT binding site; other site 296591006964 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 296591006965 MobA catalyzes the formation of molybdopterin guanine dinucleotide; Region: MobA; cd02503 296591006966 GTP binding site; other site 296591006967 molybdenum cofactor biosynthesis protein A; Reviewed; Region: moaA; PRK00164 296591006968 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 296591006969 FeS/SAM binding site; other site 296591006970 Molybdenum Cofactor Synthesis C; Region: Mob_synth_C; pfam06463 296591006971 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591006972 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 296591006973 NAD(P) binding site [chemical binding]; other site 296591006974 active site 296591006975 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 296591006976 Uncharacterized Saccharopolyspora spinosa aldehyde dehydrogenase (AAS00426)-like; Region: ALDH_AAS00426; cd07109 296591006977 NAD(P) binding site [chemical binding]; other site 296591006978 catalytic residues [active] 296591006979 catalytic residues [active] 296591006980 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 296591006981 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 296591006982 putative ligand binding site [chemical binding]; other site 296591006983 NAD binding site [chemical binding]; other site 296591006984 catalytic site [active] 296591006985 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591006986 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591006987 Transcriptional regulators [Transcription]; Region: GntR; COG1802 296591006988 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591006989 DNA-binding site [nucleotide binding]; DNA binding site 296591006990 FCD domain; Region: FCD; pfam07729 296591006991 hypothetical protein; Validated; Region: PRK08245 296591006992 dihydroxy-acid dehydratase; Provisional; Region: PRK13016 296591006993 NAD-dependent aldehyde dehydrogenases [Energy production and conversion]; Region: PutA; COG1012 296591006994 Alpha-Ketoglutaric Semialdehyde Dehydrogenase; Region: ALDH_KGSADH; cd07129 296591006995 dimer interface [polypeptide binding]; other site 296591006996 NADP binding site [chemical binding]; other site 296591006997 catalytic residues [active] 296591006998 H(+) -translocating inorganic pyrophosphatase; Region: PLN02255; cl11452 296591006999 membrane-bound proton-translocating pyrophosphatase; Validated; Region: hppA; PRK00733 296591007000 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 296591007001 dimer interface [polypeptide binding]; other site 296591007002 substrate binding site [chemical binding]; other site 296591007003 metal binding sites [ion binding]; metal-binding site 296591007004 Cysteine-rich 4 helical bundle widely conserved in bacteria; Region: DUF326; cd08026 296591007005 dimerization interface [polypeptide binding]; other site 296591007006 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 296591007007 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 296591007008 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 296591007009 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 296591007010 Phasin protein; Region: Phasin_2; pfam09361 296591007011 Low affinity iron permease; Region: Iron_permease; cl12096 296591007012 Acetyltransferase (GNAT) domain; Region: Acetyltransf_6; cl17497 296591007013 Protein of unknown function, DUF482; Region: DUF482; pfam04339 296591007014 NAD synthetase; Provisional; Region: PRK13981 296591007015 Glutamine aminotransferase (GAT, glutaminase) domain of glutamine-dependent NAD synthetases (class 7 and 8 nitrilases); Region: GAT_Gln-NAD-synth; cd07570 296591007016 multimer interface [polypeptide binding]; other site 296591007017 active site 296591007018 catalytic triad [active] 296591007019 protein interface 1 [polypeptide binding]; other site 296591007020 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 296591007021 homodimer interface [polypeptide binding]; other site 296591007022 NAD binding pocket [chemical binding]; other site 296591007023 ATP binding pocket [chemical binding]; other site 296591007024 Mg binding site [ion binding]; other site 296591007025 active-site loop [active] 296591007026 Nitrogen regulatory protein PII [Amino acid transport and metabolism]; Region: GlnK; COG0347 296591007027 Nitrogen regulatory protein P-II; Region: P-II; smart00938 296591007028 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 296591007029 Diacylglycerol kinase [Cell envelope biogenesis, outer membrane]; Region: DgkA; COG0818 296591007030 RDD family; Region: RDD; pfam06271 296591007031 Protein of unknown function (DUF3106); Region: DUF3106; pfam11304 296591007032 Protein of unknown function (DUF3619); Region: DUF3619; pfam12279 296591007033 RNA polymerase factor sigma-70; Validated; Region: PRK09047 296591007034 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 296591007035 DNA binding residues [nucleotide binding] 296591007036 acetolactate synthase 3 catalytic subunit; Validated; Region: PRK06965 296591007037 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 296591007038 PYR/PP interface [polypeptide binding]; other site 296591007039 dimer interface [polypeptide binding]; other site 296591007040 TPP binding site [chemical binding]; other site 296591007041 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 296591007042 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 296591007043 TPP-binding site [chemical binding]; other site 296591007044 dimer interface [polypeptide binding]; other site 296591007045 acetolactate synthase 3 regulatory subunit; Reviewed; Region: ilvH; PRK11895 296591007046 N-terminal ACT domain of the Escherichia coli IlvH-like regulatory subunit of acetohydroxyacid synthase (AHAS); Region: ACT_AHAS; cd04878 296591007047 putative valine binding site [chemical binding]; other site 296591007048 dimer interface [polypeptide binding]; other site 296591007049 Small subunit of acetolactate synthase; Region: ALS_ss_C; pfam10369 296591007050 ketol-acid reductoisomerase; Provisional; Region: PRK05479 296591007051 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvN; pfam07991 296591007052 Acetohydroxy acid isomeroreductase, catalytic domain; Region: IlvC; pfam01450 296591007053 Phosphatidylserine synthase [Lipid metabolism]; Region: PssA; COG1183 296591007054 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; pfam01066 296591007055 2-isopropylmalate synthase; Validated; Region: PRK03739 296591007056 Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_LeuA; cd07942 296591007057 active site 296591007058 catalytic residues [active] 296591007059 metal binding site [ion binding]; metal-binding site 296591007060 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 296591007061 2-isopropylmalate synthase; Validated; Region: PRK00915 296591007062 2-isopropylmalate synthase (IPMS), N-terminal catalytic TIM barrel domain; Region: DRE_TIM_IPMS; cd07940 296591007063 active site 296591007064 catalytic residues [active] 296591007065 metal binding site [ion binding]; metal-binding site 296591007066 LeuA allosteric (dimerisation) domain; Region: LeuA_dimer; smart00917 296591007067 Beta-lactamase enzyme family; Region: Beta-lactamase2; cl17872 296591007068 D-alanyl-D-alanine carboxypeptidase; Region: Peptidase_S11; pfam00768 296591007069 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 296591007070 Transcriptional regulator [Transcription]; Region: IclR; COG1414 296591007071 Bacterial transcriptional regulator; Region: IclR; pfam01614 296591007072 arginyl-tRNA-protein transferase; Provisional; Region: PRK01305 296591007073 Arginine-tRNA-protein transferase, N terminus; Region: ATE_N; pfam04376 296591007074 Arginine-tRNA-protein transferase, C terminus; Region: ATE_C; pfam04377 296591007075 leucyl/phenylalanyl-tRNA--protein transferase; Reviewed; Region: aat; PRK00301 296591007076 Predicted periplasmic lipoprotein (DUF2279); Region: DUF2279; cl11574 296591007077 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 296591007078 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 296591007079 Transglycosylase; Region: Transgly; pfam00912 296591007080 penicillin-binding protein, 1A family; Region: PBP_1a_fam; TIGR02074 296591007081 Penicillin binding protein transpeptidase domain; Region: Transpeptidase; cl17760 296591007082 SPW repeat; Region: SPW; pfam03779 296591007083 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 296591007084 dimer interface [polypeptide binding]; other site 296591007085 substrate binding site [chemical binding]; other site 296591007086 ATP binding site [chemical binding]; other site 296591007087 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 296591007088 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 296591007089 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 296591007090 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 296591007091 Ferredoxin [Energy production and conversion]; Region: COG1146 296591007092 4Fe-4S binding domain; Region: Fer4; cl02805 296591007093 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 296591007094 GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]; Region: CysN; COG2895 296591007095 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 296591007096 G1 box; other site 296591007097 GTP/Mg2+ binding site [chemical binding]; other site 296591007098 G2 box; other site 296591007099 Switch I region; other site 296591007100 G3 box; other site 296591007101 Switch II region; other site 296591007102 G4 box; other site 296591007103 G5 box; other site 296591007104 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 296591007105 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 296591007106 sulfate adenylyltransferase, small subunit; Region: CysD; TIGR02039 296591007107 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 296591007108 Active Sites [active] 296591007109 3'-phosphoadenosine 5'-phosphosulfate sulfotransferase (PAPS reductase)/FAD synthetase and related enzymes [Amino acid transport and metabolism / Coenzyme metabolism]; Region: CysH; COG0175 296591007110 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 296591007111 Active Sites [active] 296591007112 Bacterial protein of unknown function (DUF934); Region: DUF934; pfam06073 296591007113 Sulfite reductase, beta subunit (hemoprotein) [Inorganic ion transport and metabolism]; Region: CysI; COG0155 296591007114 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 296591007115 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 296591007116 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 296591007117 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 296591007118 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_Arsenic_SBP_like; cd06330 296591007119 putative ligand binding site [chemical binding]; other site 296591007120 Response regulator receiver domain; Region: Response_reg; pfam00072 296591007121 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 296591007122 active site 296591007123 phosphorylation site [posttranslational modification] 296591007124 intermolecular recognition site; other site 296591007125 dimerization interface [polypeptide binding]; other site 296591007126 bifunctional tRNA (mnm(5)s(2)U34)-methyltransferase/FAD-dependent cmnm(5)s(2)U34 oxidoreductase; Reviewed; Region: mnmC; PRK01747 296591007127 Uncharacterized conserved protein [Function unknown]; Region: COG4121 296591007128 oxidative damage protection protein; Provisional; Region: PRK05408 296591007129 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 296591007130 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 296591007131 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 296591007132 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 296591007133 FMN binding site [chemical binding]; other site 296591007134 active site 296591007135 substrate binding site [chemical binding]; other site 296591007136 catalytic residue [active] 296591007137 Short-chain dehydrogenases of various substrate specificities [General function prediction only]; Region: DltE; COG0300 296591007138 classical (c) SDRs; Region: SDR_c; cd05233 296591007139 NAD(P) binding site [chemical binding]; other site 296591007140 active site 296591007141 Transcriptional regulators [Transcription]; Region: MarR; COG1846 296591007142 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591007143 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 296591007144 CoA-transferase family III; Region: CoA_transf_3; pfam02515 296591007145 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 296591007146 active site 296591007147 catalytic residues [active] 296591007148 metal binding site [ion binding]; metal-binding site 296591007149 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591007150 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591007151 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 296591007152 putative dimerization interface [polypeptide binding]; other site 296591007153 Protein-disulfide isomerase [Posttranslational modification, protein turnover, chaperones]; Region: DsbG; COG1651 296591007154 Thioredoxin; Region: Thioredoxin_4; cl17273 296591007155 ATP-dependent RNA helicase SrmB; Provisional; Region: PRK11192 296591007156 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 296591007157 ATP binding site [chemical binding]; other site 296591007158 Mg++ binding site [ion binding]; other site 296591007159 motif III; other site 296591007160 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 296591007161 nucleotide binding region [chemical binding]; other site 296591007162 ATP-binding site [chemical binding]; other site 296591007163 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 296591007164 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 296591007165 C-terminal domain interface [polypeptide binding]; other site 296591007166 GSH binding site (G-site) [chemical binding]; other site 296591007167 dimer interface [polypeptide binding]; other site 296591007168 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 296591007169 dimer interface [polypeptide binding]; other site 296591007170 N-terminal domain interface [polypeptide binding]; other site 296591007171 putative substrate binding pocket (H-site) [chemical binding]; other site 296591007172 LysE type translocator; Region: LysE; cl00565 296591007173 Fucose 4-O-acetylase and related acetyltransferases [Carbohydrate transport and metabolism]; Region: NolL; COG3594 296591007174 Acyltransferase family; Region: Acyl_transf_3; pfam01757 296591007175 DL-methionine transporter ATP-binding subunit; Provisional; Region: metN; PRK11153 296591007176 ATP-binding cassette domain of methionine transporter; Region: ABC_MetN_methionine_transporter; cd03258 296591007177 Walker A/P-loop; other site 296591007178 ATP binding site [chemical binding]; other site 296591007179 Q-loop/lid; other site 296591007180 ABC transporter signature motif; other site 296591007181 Walker B; other site 296591007182 D-loop; other site 296591007183 H-loop/switch region; other site 296591007184 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 296591007185 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 296591007186 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 296591007187 dimer interface [polypeptide binding]; other site 296591007188 conserved gate region; other site 296591007189 ABC-ATPase subunit interface; other site 296591007190 ABC-type metal ion transport system, periplasmic component/surface antigen [Inorganic ion transport and metabolism]; Region: NlpA; COG1464 296591007191 NLPA lipoprotein; Region: Lipoprotein_9; pfam03180 296591007192 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 296591007193 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 296591007194 putative substrate translocation pore; other site 296591007195 Predicted flavoprotein [General function prediction only]; Region: COG0431 296591007196 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 296591007197 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 296591007198 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 296591007199 LysR family transcriptional regulator; Provisional; Region: PRK14997 296591007200 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591007201 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 296591007202 putative effector binding pocket; other site 296591007203 putative dimerization interface [polypeptide binding]; other site 296591007204 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 296591007205 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 296591007206 dimer interface [polypeptide binding]; other site 296591007207 decamer (pentamer of dimers) interface [polypeptide binding]; other site 296591007208 catalytic triad [active] 296591007209 Serine hydrolase; Region: Ser_hydrolase; pfam06821 296591007210 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 296591007211 ABC-type sulfate transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: Sbp; COG1613 296591007212 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 296591007213 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 296591007214 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 296591007215 dimer interface [polypeptide binding]; other site 296591007216 conserved gate region; other site 296591007217 putative PBP binding loops; other site 296591007218 ABC-ATPase subunit interface; other site 296591007219 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 296591007220 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 296591007221 dimer interface [polypeptide binding]; other site 296591007222 conserved gate region; other site 296591007223 putative PBP binding loops; other site 296591007224 ABC-ATPase subunit interface; other site 296591007225 ABC-type sulfate/molybdate transport systems, ATPase component [Inorganic ion transport and metabolism]; Region: CysA; COG1118 296591007226 ATP-binding cassette domain of the sulfate transporter; Region: ABC_CysA_sulfate_importer; cd03296 296591007227 Walker A/P-loop; other site 296591007228 ATP binding site [chemical binding]; other site 296591007229 Q-loop/lid; other site 296591007230 ABC transporter signature motif; other site 296591007231 Walker B; other site 296591007232 D-loop; other site 296591007233 H-loop/switch region; other site 296591007234 TOBE-like domain; Region: TOBE_3; pfam12857 296591007235 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 296591007236 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_19; cd07262 296591007237 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 296591007238 dimer interface [polypeptide binding]; other site 296591007239 uncharacterized peroxidase-related enzyme; Region: peroxid_rel; TIGR01926 296591007240 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 296591007241 Acetyltransferases [General function prediction only]; Region: RimI; COG0456 296591007242 Coenzyme A binding pocket [chemical binding]; other site 296591007243 SnoaL-like domain; Region: SnoaL_2; pfam12680 296591007244 Disulfide bond formation protein DsbB; Region: DsbB; pfam02600 296591007245 Uncharacterized conserved protein [Function unknown]; Region: COG4544 296591007246 DNA Polymerase Y-family; Region: PolY_like; cd03468 296591007247 DNA binding site [nucleotide binding] 296591007248 error-prone DNA polymerase; Validated; Region: dnaE2; PRK05672 296591007249 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III at DnaE2 gene; Region: PHP_PolIIIA_DnaE2; cd07434 296591007250 putative active site [active] 296591007251 putative PHP Thumb interface [polypeptide binding]; other site 296591007252 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 296591007253 generic binding surface I; other site 296591007254 generic binding surface II; other site 296591007255 Response regulator receiver domain; Region: Response_reg; pfam00072 296591007256 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 296591007257 active site 296591007258 phosphorylation site [posttranslational modification] 296591007259 intermolecular recognition site; other site 296591007260 dimerization interface [polypeptide binding]; other site 296591007261 PAS domain S-box; Region: sensory_box; TIGR00229 296591007262 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 296591007263 putative active site [active] 296591007264 heme pocket [chemical binding]; other site 296591007265 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 296591007266 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 296591007267 dimer interface [polypeptide binding]; other site 296591007268 phosphorylation site [posttranslational modification] 296591007269 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 296591007270 ATP binding site [chemical binding]; other site 296591007271 Mg2+ binding site [ion binding]; other site 296591007272 G-X-G motif; other site 296591007273 Response regulator receiver domain; Region: Response_reg; pfam00072 296591007274 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 296591007275 active site 296591007276 phosphorylation site [posttranslational modification] 296591007277 intermolecular recognition site; other site 296591007278 dimerization interface [polypeptide binding]; other site 296591007279 Erythromycin esterase; Region: Erythro_esteras; pfam05139 296591007280 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 296591007281 active site 296591007282 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 296591007283 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3813 296591007284 Protein of unknown function (DUF1272); Region: DUF1272; pfam06906 296591007285 Uncharacterized bacterial family of heme peroxidases; Region: An_peroxidase_bacterial_1; cd09819 296591007286 putative heme binding site [chemical binding]; other site 296591007287 putative substrate binding site [chemical binding]; other site 296591007288 N-acetylglutamate synthase; Validated; Region: PRK05279 296591007289 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 296591007290 putative feedback inhibition sensing region; other site 296591007291 putative nucleotide binding site [chemical binding]; other site 296591007292 putative substrate binding site [chemical binding]; other site 296591007293 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 296591007294 Coenzyme A binding pocket [chemical binding]; other site 296591007295 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 296591007296 Class III nucleotidyl cyclases; Region: Nucleotidyl_cyc_III; cl11967 296591007297 metal binding site [ion binding]; metal-binding site 296591007298 nucleotidyl binding site; other site 296591007299 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 296591007300 ATP binding site [chemical binding]; other site 296591007301 putative Mg++ binding site [ion binding]; other site 296591007302 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 296591007303 nucleotide binding region [chemical binding]; other site 296591007304 ATP-binding site [chemical binding]; other site 296591007305 Helicase associated domain (HA2); Region: HA2; pfam04408 296591007306 Oligonucleotide/oligosaccharide-binding (OB)-fold; Region: OB_NTP_bind; pfam07717 296591007307 Domain of unknown function (DUF3418); Region: DUF3418; pfam11898 296591007308 Protein of unknown function (DUF3309); Region: DUF3309; pfam11752 296591007309 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 296591007310 NMT1/THI5 like; Region: NMT1; pfam09084 296591007311 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 296591007312 membrane-bound complex binding site; other site 296591007313 hinge residues; other site 296591007314 methionine aminotransferase; Validated; Region: PRK09082 296591007315 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 296591007316 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591007317 homodimer interface [polypeptide binding]; other site 296591007318 catalytic residue [active] 296591007319 transcriptional regulator CysB-like protein; Reviewed; Region: PRK12682 296591007320 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591007321 The C-terminal substrate domain of LysR-type transcriptional regulators CysB-like contains type 2 periplasmic binding fold; Region: PBP2_CysB_like; cd08413 296591007322 substrate binding site [chemical binding]; other site 296591007323 dimerization interface [polypeptide binding]; other site 296591007324 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 296591007325 putative active site [active] 296591007326 Predicted permeases [General function prediction only]; Region: COG0795; cl12074 296591007327 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 296591007328 Predicted permeases [General function prediction only]; Region: COG0795 296591007329 Predicted permease YjgP/YjgQ family; Region: YjgP_YjgQ; pfam03739 296591007330 multifunctional aminopeptidase A; Provisional; Region: PRK00913 296591007331 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 296591007332 interface (dimer of trimers) [polypeptide binding]; other site 296591007333 Substrate-binding/catalytic site; other site 296591007334 Zn-binding sites [ion binding]; other site 296591007335 DNA polymerase III chi subunit, HolC; Region: DNA_pol3_chi; pfam04364 296591007336 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 296591007337 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 296591007338 dimerization interface [polypeptide binding]; other site 296591007339 ligand binding site [chemical binding]; other site 296591007340 Uncharacterized protein conserved in bacteria (DUF2237); Region: DUF2237; pfam09996 296591007341 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 296591007342 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 296591007343 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 296591007344 Orn/Lys/Arg decarboxylase, N-terminal domain; Region: OKR_DC_1_N; pfam03709 296591007345 Arginine/lysine/ornithine decarboxylases [Amino acid transport and metabolism]; Region: LdcC; COG1982 296591007346 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 296591007347 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 296591007348 catalytic residue [active] 296591007349 Orn/Lys/Arg decarboxylase, C-terminal domain; Region: OKR_DC_1_C; pfam03711 296591007350 Adenylation domain of kDNA ligases and similar proteins; Region: Adenylation_kDNA_ligase_like; cd07896 296591007351 DNA binding site [nucleotide binding] 296591007352 DNA polymerase LigD, ligase domain; Region: NHEJ_ligase_lig; TIGR02779 296591007353 active site 296591007354 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of kDNA ligase-like ATP-dependent DNA ligases is a DNA-binding module that is part of the catalytic core unit; Region: OBF_kDNA_ligase_like; cd08041 296591007355 DNA binding site [nucleotide binding] 296591007356 Uncharacterized conserved protein [Function unknown]; Region: COG3791 296591007357 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 296591007358 enoyl-(acyl carrier protein) reductase; Provisional; Region: PRK06997 296591007359 Enoyl acyl carrier protein (ACP) reductase (ENR), divergent SDR; Region: ENR_SDR; cd05372 296591007360 NAD binding site [chemical binding]; other site 296591007361 homotetramer interface [polypeptide binding]; other site 296591007362 homodimer interface [polypeptide binding]; other site 296591007363 substrate binding site [chemical binding]; other site 296591007364 active site 296591007365 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 296591007366 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 296591007367 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4174 296591007368 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 296591007369 dimer interface [polypeptide binding]; other site 296591007370 conserved gate region; other site 296591007371 putative PBP binding loops; other site 296591007372 ABC-ATPase subunit interface; other site 296591007373 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 296591007374 ABC-type uncharacterized transport system, permease component [General function prediction only]; Region: COG4239 296591007375 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 296591007376 dimer interface [polypeptide binding]; other site 296591007377 conserved gate region; other site 296591007378 putative PBP binding loops; other site 296591007379 ABC-ATPase subunit interface; other site 296591007380 ABC-type uncharacterized transport system, duplicated ATPase component [General function prediction only]; Region: COG4172 296591007381 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 296591007382 Walker A/P-loop; other site 296591007383 ATP binding site [chemical binding]; other site 296591007384 Q-loop/lid; other site 296591007385 ABC transporter signature motif; other site 296591007386 Walker B; other site 296591007387 D-loop; other site 296591007388 H-loop/switch region; other site 296591007389 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 296591007390 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 296591007391 Walker A/P-loop; other site 296591007392 ATP binding site [chemical binding]; other site 296591007393 Q-loop/lid; other site 296591007394 ABC transporter signature motif; other site 296591007395 Walker B; other site 296591007396 D-loop; other site 296591007397 H-loop/switch region; other site 296591007398 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 296591007399 ribosome maturation protein RimP; Reviewed; Region: PRK00092 296591007400 Sm and related proteins; Region: Sm_like; cl00259 296591007401 Bacillus subtilis YxlS-like, C-terminal domain; Region: YlxS_C; cd01734 296591007402 putative oligomer interface [polypeptide binding]; other site 296591007403 putative RNA binding site [nucleotide binding]; other site 296591007404 transcription elongation factor NusA; Validated; Region: nusA; PRK09202 296591007405 NusA N-terminal domain; Region: NusA_N; pfam08529 296591007406 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 296591007407 RNA binding site [nucleotide binding]; other site 296591007408 homodimer interface [polypeptide binding]; other site 296591007409 NusA-like KH domain; Region: KH_5; pfam13184 296591007410 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 296591007411 G-X-X-G motif; other site 296591007412 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 296591007413 transcription termination factor NusA, C-terminal duplication; Region: nusA_Cterm_rpt; TIGR01954 296591007414 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 296591007415 Bacterial translation initiation factor IF-2 associated region; Region: IF2_assoc; pfam08364 296591007416 translation initiation factor IF-2; Region: IF-2; TIGR00487 296591007417 Translation initiation factor IF-2, N-terminal region; Region: IF2_N; pfam04760 296591007418 Initiation Factor 2 (IF2)/ eukaryotic Initiation Factor 5B (eIF5B) family; Region: IF2_eIF5B; cd01887 296591007419 G1 box; other site 296591007420 putative GEF interaction site [polypeptide binding]; other site 296591007421 GTP/Mg2+ binding site [chemical binding]; other site 296591007422 Switch I region; other site 296591007423 G2 box; other site 296591007424 G3 box; other site 296591007425 Switch II region; other site 296591007426 G4 box; other site 296591007427 G5 box; other site 296591007428 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 296591007429 Translation-initiation factor 2; Region: IF-2; pfam11987 296591007430 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 296591007431 ribosome-binding factor A; Validated; Region: rbfA; PRK00521 296591007432 tRNA pseudouridine synthase B; Provisional; Region: truB; PRK01851 296591007433 Pseudouridine synthase, Escherichia coli TruB like; Region: PseudoU_synth_EcTruB; cd02573 296591007434 RNA binding site [nucleotide binding]; other site 296591007435 active site 296591007436 Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]; Region: TypA; COG1217 296591007437 Tyrosine phosphorylated protein A (TypA)/BipA family belongs to ribosome-binding GTPases; Region: TypA_BipA; cd01891 296591007438 G1 box; other site 296591007439 putative GEF interaction site [polypeptide binding]; other site 296591007440 GTP/Mg2+ binding site [chemical binding]; other site 296591007441 Switch I region; other site 296591007442 G2 box; other site 296591007443 G3 box; other site 296591007444 Switch II region; other site 296591007445 G4 box; other site 296591007446 G5 box; other site 296591007447 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 296591007448 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 296591007449 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 296591007450 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 296591007451 substrate binding site [chemical binding]; other site 296591007452 oxyanion hole (OAH) forming residues; other site 296591007453 trimer interface [polypeptide binding]; other site 296591007454 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 296591007455 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 296591007456 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 296591007457 DNA binding residues [nucleotide binding] 296591007458 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 296591007459 SmpB-tmRNA interface; other site 296591007460 Coenzyme Q-binding protein COQ10p and similar proteins; Region: COQ10p_like; cd07813 296591007461 putative coenzyme Q binding site [chemical binding]; other site 296591007462 RnfH family Ubiquitin; Region: Ub-RnfH; cl17382 296591007463 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 296591007464 inosine 5'-monophosphate dehydrogenase; Reviewed; Region: PRK05567 296591007465 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 296591007466 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 296591007467 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 296591007468 active site 296591007469 GMP synthase; Reviewed; Region: guaA; PRK00074 296591007470 Type 1 glutamine amidotransferase (GATase1) domain found in GMP synthetase; Region: GATase1_GMP_Synthase; cd01742 296591007471 AMP/PPi binding site [chemical binding]; other site 296591007472 candidate oxyanion hole; other site 296591007473 catalytic triad [active] 296591007474 potential glutamine specificity residues [chemical binding]; other site 296591007475 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 296591007476 ATP Binding subdomain [chemical binding]; other site 296591007477 Ligand Binding sites [chemical binding]; other site 296591007478 Dimerization subdomain; other site 296591007479 2'-5' RNA ligase [Translation, ribosomal structure and biogenesis]; Region: LigT; COG1514 296591007480 LigT like Phosphoesterase; Region: LigT_PEase; pfam02834 296591007481 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591007482 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591007483 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 296591007484 putative dimerization interface [polypeptide binding]; other site 296591007485 Putative FMN-binding domain; Region: FMN_bind_2; pfam04299 296591007486 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 296591007487 nucleoside/Zn binding site; other site 296591007488 dimer interface [polypeptide binding]; other site 296591007489 catalytic motif [active] 296591007490 haloalkane dehalogenase; Provisional; Region: PRK00870 296591007491 LD-Carboxypeptidase, a serine protease, includes microcin C7 self immunity protein; Region: Peptidase_S66; cd07025 296591007492 Predicted nucleotide-utilizing enzyme related to molybdopterin-biosynthesis enzyme MoeA [General function prediction only]; Region: CinA; COG1058 296591007493 dimer interface [polypeptide binding]; other site 296591007494 catalytic triad [active] 296591007495 squalene--tetrahymanol cyclase; Region: squa_tetra_cyc; TIGR04277 296591007496 Rhodococcus ruber 6-oxolauric acid dehydrogenase-like; Region: ALDH_CddD_SSP0762; cd07138 296591007497 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 296591007498 NAD binding site [chemical binding]; other site 296591007499 catalytic residues [active] 296591007500 cyclase homology domain; Region: CHD; cd07302 296591007501 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 296591007502 nucleotidyl binding site; other site 296591007503 metal binding site [ion binding]; metal-binding site 296591007504 dimer interface [polypeptide binding]; other site 296591007505 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 296591007506 phosphopeptide binding site; other site 296591007507 Protein related to penicillin acylase [General function prediction only]; Region: COG2366 296591007508 Penicillin G acylase (PGA) belongs to a family of beta-lactam acylases that includes cephalosporin acylase (CA) and aculeacin A acylase. PGA and CA are crucial for the production of backbone chemicals like 6-aminopenicillanic acid and...; Region: Ntn_PGA_like; cd03747 296591007509 active site 296591007510 hydroperoxidase II; Provisional; Region: katE; PRK11249 296591007511 Clade 2 of the heme-binding enzyme catalase; Region: catalase_clade_2; cd08155 296591007512 tetramer interface [polypeptide binding]; other site 296591007513 heme binding pocket [chemical binding]; other site 296591007514 Type 1 glutamine amidotransferase (GATase1)-like domain found in at the C-terminal of several large catalases; Region: GATase1_catalase; cd03132 296591007515 domain interactions; other site 296591007516 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 296591007517 Response regulator receiver domain; Region: Response_reg; pfam00072 296591007518 active site 296591007519 phosphorylation site [posttranslational modification] 296591007520 intermolecular recognition site; other site 296591007521 dimerization interface [polypeptide binding]; other site 296591007522 Chemotaxis signal transduction protein [Cell motility and secretion / Signal transduction mechanisms]; Region: CheW; COG0835 296591007523 Methyltransferase, chemotaxis proteins; Region: MeTrc; smart00138 296591007524 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 296591007525 S-adenosylmethionine binding site [chemical binding]; other site 296591007526 Tetratricopeptide repeat; Region: TPR_16; pfam13432 296591007527 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 296591007528 binding surface 296591007529 TPR motif; other site 296591007530 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 296591007531 Outer membrane receptor for ferrienterochelin and colicins [Inorganic ion transport and metabolism]; Region: FepA; COG4771 296591007532 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 296591007533 Domain of unknown function (DUF4154); Region: DUF4154; pfam13689 296591007534 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 296591007535 dimerization interface [polypeptide binding]; other site 296591007536 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 296591007537 dimer interface [polypeptide binding]; other site 296591007538 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 296591007539 putative CheW interface [polypeptide binding]; other site 296591007540 Four helix bundle sensory module for signal transduction; Region: 4HB_MCP_1; pfam12729 296591007541 CHASE3 domain; Region: CHASE3; pfam05227 296591007542 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 296591007543 dimerization interface [polypeptide binding]; other site 296591007544 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 296591007545 dimerization interface [polypeptide binding]; other site 296591007546 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 296591007547 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 296591007548 dimer interface [polypeptide binding]; other site 296591007549 putative CheW interface [polypeptide binding]; other site 296591007550 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 296591007551 dimerization interface [polypeptide binding]; other site 296591007552 Methyl-accepting chemotaxis protein (MCP), signaling domain; Region: MCP_signal; cd11386 296591007553 dimer interface [polypeptide binding]; other site 296591007554 Methyl-accepting chemotaxis protein (MCP) signalling domain; Region: MCPsignal; pfam00015 296591007555 putative CheW interface [polypeptide binding]; other site 296591007556 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 296591007557 putative binding surface; other site 296591007558 active site 296591007559 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 296591007560 ATP binding site [chemical binding]; other site 296591007561 Mg2+ binding site [ion binding]; other site 296591007562 G-X-G motif; other site 296591007563 CheW-like domain. CheW proteins are part of the chemotaxis signalling mechanism in bacteria. CheW interacts with the methyl accepting chemotaxis proteins (MCPs) and relays signals to CheY, which affects flageller rotation. This family includes CheW and...; Region: CheW_like; cl00256 296591007564 Response regulator receiver domain; Region: Response_reg; pfam00072 296591007565 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 296591007566 active site 296591007567 phosphorylation site [posttranslational modification] 296591007568 intermolecular recognition site; other site 296591007569 dimerization interface [polypeptide binding]; other site 296591007570 chemotaxis-specific methylesterase; Provisional; Region: PRK12555 296591007571 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 296591007572 active site 296591007573 phosphorylation site [posttranslational modification] 296591007574 intermolecular recognition site; other site 296591007575 dimerization interface [polypeptide binding]; other site 296591007576 CheB methylesterase; Region: CheB_methylest; pfam01339 296591007577 Response regulator receiver domain; Region: Response_reg; pfam00072 296591007578 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 296591007579 active site 296591007580 phosphorylation site [posttranslational modification] 296591007581 intermolecular recognition site; other site 296591007582 dimerization interface [polypeptide binding]; other site 296591007583 PAS fold; Region: PAS_4; pfam08448 296591007584 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 296591007585 putative active site [active] 296591007586 heme pocket [chemical binding]; other site 296591007587 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 296591007588 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 296591007589 putative active site [active] 296591007590 heme pocket [chemical binding]; other site 296591007591 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 296591007592 dimer interface [polypeptide binding]; other site 296591007593 phosphorylation site [posttranslational modification] 296591007594 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 296591007595 ATP binding site [chemical binding]; other site 296591007596 Mg2+ binding site [ion binding]; other site 296591007597 G-X-G motif; other site 296591007598 Response regulator receiver domain; Region: Response_reg; pfam00072 296591007599 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 296591007600 active site 296591007601 phosphorylation site [posttranslational modification] 296591007602 intermolecular recognition site; other site 296591007603 dimerization interface [polypeptide binding]; other site 296591007604 Hpt domain; Region: Hpt; pfam01627 296591007605 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 296591007606 Response regulator receiver domain; Region: Response_reg; pfam00072 296591007607 active site 296591007608 phosphorylation site [posttranslational modification] 296591007609 intermolecular recognition site; other site 296591007610 dimerization interface [polypeptide binding]; other site 296591007611 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 296591007612 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 296591007613 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 296591007614 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 296591007615 3-hydroxyisobutyrate dehydrogenase; Region: HIBADH; TIGR01692 296591007616 3-hydroxyisobutyryl-CoA hydrolase; Provisional; Region: PRK05617 296591007617 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 296591007618 substrate binding site [chemical binding]; other site 296591007619 oxyanion hole (OAH) forming residues; other site 296591007620 trimer interface [polypeptide binding]; other site 296591007621 2-enoyl-CoA Hydratase C-terminal region; Region: ECH_C; pfam13766 296591007622 enoyl-CoA hydratase; Provisional; Region: PRK09076 296591007623 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 296591007624 substrate binding site [chemical binding]; other site 296591007625 oxyanion hole (OAH) forming residues; other site 296591007626 trimer interface [polypeptide binding]; other site 296591007627 HTH-like domain; Region: HTH_21; pfam13276 296591007628 Integrase core domain; Region: rve; pfam00665 296591007629 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591007630 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 296591007631 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 296591007632 active site 296591007633 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 296591007634 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 296591007635 NADP binding site [chemical binding]; other site 296591007636 dimer interface [polypeptide binding]; other site 296591007637 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 296591007638 CoA-transferase family III; Region: CoA_transf_3; pfam02515 296591007639 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 296591007640 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591007641 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 296591007642 dimerization interface [polypeptide binding]; other site 296591007643 substrate binding pocket [chemical binding]; other site 296591007644 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 296591007645 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591007646 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 296591007647 dimerization interface [polypeptide binding]; other site 296591007648 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 296591007649 FAD binding domain; Region: FAD_binding_4; pfam01565 296591007650 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 296591007651 CoA-transferase family III; Region: CoA_transf_3; pfam02515 296591007652 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591007653 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 296591007654 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 296591007655 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 296591007656 putative sialic acid transporter; Provisional; Region: PRK03893 296591007657 Alcaligenes xylosoxidans NreA and related domains; this domain family was previously known as part of DUF156; Region: NreA-like_DUF156; cd10154 296591007658 putative homodimer interface [polypeptide binding]; other site 296591007659 putative homotetramer interface [polypeptide binding]; other site 296591007660 putative metal binding site [ion binding]; other site 296591007661 putative homodimer-homodimer interface [polypeptide binding]; other site 296591007662 putative allosteric switch controlling residues; other site 296591007663 H+ Antiporter protein; Region: 2A0121; TIGR00900 296591007664 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 296591007665 putative substrate translocation pore; other site 296591007666 High-affinity nickel-transport protein; Region: NicO; cl00964 296591007667 High-affinity nickel-transport protein; Region: NicO; cl00964 296591007668 Predicted divalent heavy-metal cations transporter [Inorganic ion transport and metabolism]; Region: COG0428 296591007669 Domain of unknown function (DUF336); Region: DUF336; pfam03928 296591007670 N-terminal domain of molybdenum-binding protein [General function prediction only]; Region: ModE; cl17549 296591007671 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 296591007672 tungstate ABC transporter binding protein WtpA; Region: tungstate_WtpA; TIGR03730 296591007673 ABC-type sulfate transport system, permease component [Posttranslational modification, protein turnover, chaperones]; Region: CysU; COG0555 296591007674 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 296591007675 dimer interface [polypeptide binding]; other site 296591007676 conserved gate region; other site 296591007677 putative PBP binding loops; other site 296591007678 ABC-ATPase subunit interface; other site 296591007679 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 296591007680 ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]; Region: MalK; COG3839 296591007681 Walker A/P-loop; other site 296591007682 ATP binding site [chemical binding]; other site 296591007683 Q-loop/lid; other site 296591007684 ABC transporter signature motif; other site 296591007685 Walker B; other site 296591007686 D-loop; other site 296591007687 H-loop/switch region; other site 296591007688 TOBE domain; Region: TOBE_2; pfam08402 296591007689 Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of...; Region: LamG; cl17353 296591007690 Superoxide dismutase [Inorganic ion transport and metabolism]; Region: SodA; COG0605 296591007691 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 296591007692 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 296591007693 active site residue [active] 296591007694 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 296591007695 chromate transporter, chromate ion transporter (CHR) family; Region: 2A51; TIGR00937 296591007696 Chromate transporter; Region: Chromate_transp; pfam02417 296591007697 HupE / UreJ protein; Region: HupE_UreJ_2; pfam13795 296591007698 Phage derived protein Gp49-like (DUF891); Region: Gp49; cl01470 296591007699 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 296591007700 non-specific DNA binding site [nucleotide binding]; other site 296591007701 salt bridge; other site 296591007702 sequence-specific DNA binding site [nucleotide binding]; other site 296591007703 Cre recombinase, C-terminal catalytic domain. Cre-like recombinases belong to the superfamily of DNA breaking-rejoining enzymes, which share the same fold in their catalytic domain and the overall reaction mechanism. The bacteriophage P1 Cre...; Region: INT_Cre; cd00799 296591007704 DNA binding site [nucleotide binding] 296591007705 dimer interface [polypeptide binding]; other site 296591007706 active site 296591007707 Int/Topo IB signature motif; other site 296591007708 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 296591007709 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; pfam01526 296591007710 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4185 296591007711 AAA domain; Region: AAA_33; pfam13671 296591007712 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; cl09153 296591007713 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 296591007714 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 296591007715 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 296591007716 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 296591007717 active site 296591007718 PilZ domain; Region: PilZ; cl01260 296591007719 DNA polymerase III subunit delta'; Validated; Region: PRK06964 296591007720 DNA polymerase III subunit delta'; Validated; Region: PRK08485 296591007721 thymidylate kinase; Validated; Region: tmk; PRK00698 296591007722 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 296591007723 TMP-binding site; other site 296591007724 ATP-binding site [chemical binding]; other site 296591007725 YceG-like family; Region: YceG; pfam02618 296591007726 proteins similar to Escherichia coli yceG; Region: yceG_like; cd08010 296591007727 dimerization interface [polypeptide binding]; other site 296591007728 Predicted aminomethyltransferase related to GcvT [General function prediction only]; Region: COG0354 296591007729 folate-binding protein YgfZ; Region: ygfZ_signature; TIGR03317 296591007730 NRDE protein; Region: NRDE; cl01315 296591007731 O-Antigen ligase; Region: Wzy_C; pfam04932 296591007732 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 296591007733 binding surface 296591007734 TPR motif; other site 296591007735 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 296591007736 active site 296591007737 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 296591007738 Coenzyme A binding pocket [chemical binding]; other site 296591007739 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 296591007740 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 296591007741 substrate binding pocket [chemical binding]; other site 296591007742 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 296591007743 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 296591007744 putative active site [active] 296591007745 metal binding site [ion binding]; metal-binding site 296591007746 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 296591007747 acetylornithine deacetylase; Provisional; Region: PRK07522 296591007748 metal binding site [ion binding]; metal-binding site 296591007749 putative dimer interface [polypeptide binding]; other site 296591007750 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 296591007751 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 296591007752 Walker A/P-loop; other site 296591007753 ATP binding site [chemical binding]; other site 296591007754 Q-loop/lid; other site 296591007755 ABC transporter signature motif; other site 296591007756 Walker B; other site 296591007757 D-loop; other site 296591007758 H-loop/switch region; other site 296591007759 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 296591007760 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 296591007761 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 296591007762 Walker A/P-loop; other site 296591007763 ATP binding site [chemical binding]; other site 296591007764 Q-loop/lid; other site 296591007765 ABC transporter signature motif; other site 296591007766 Walker B; other site 296591007767 D-loop; other site 296591007768 H-loop/switch region; other site 296591007769 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 296591007770 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 296591007771 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 296591007772 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 296591007773 dimer interface [polypeptide binding]; other site 296591007774 conserved gate region; other site 296591007775 putative PBP binding loops; other site 296591007776 ABC-ATPase subunit interface; other site 296591007777 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 296591007778 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 296591007779 dimer interface [polypeptide binding]; other site 296591007780 conserved gate region; other site 296591007781 putative PBP binding loops; other site 296591007782 ABC-ATPase subunit interface; other site 296591007783 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 296591007784 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_2; cd08498 296591007785 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 296591007786 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 296591007787 metal binding site [ion binding]; metal-binding site 296591007788 putative dimer interface [polypeptide binding]; other site 296591007789 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 296591007790 S-adenosylmethionine binding site [chemical binding]; other site 296591007791 PAP2_like proteins, a super-family of histidine phosphatases and vanadium haloperoxidases, includes type 2 phosphatidic acid phosphatase or lipid phosphate phosphatase (LPP), Glucose-6-phosphatase, Phosphatidylglycerophosphatase B and bacterial acid...; Region: PAP2_like; cl00474 296591007792 active site 296591007793 Transcriptional accessory protein [Transcription]; Region: Tex; COG2183 296591007794 Tex-like protein N-terminal domain; Region: Tex_N; pfam09371 296591007795 Likely ribonuclease with RNase H fold; Region: YqgFc; smart00732 296591007796 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 296591007797 RNA binding site [nucleotide binding]; other site 296591007798 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 296591007799 Protein of unknown function (DUF1223); Region: DUF1223; pfam06764 296591007800 Histidine kinase; Region: HisKA_3; pfam07730 296591007801 Histidine kinase-like ATPase domain; Region: HATPase_c_2; pfam13581 296591007802 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 296591007803 ATP binding site [chemical binding]; other site 296591007804 Mg2+ binding site [ion binding]; other site 296591007805 G-X-G motif; other site 296591007806 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 296591007807 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 296591007808 active site 296591007809 phosphorylation site [posttranslational modification] 296591007810 intermolecular recognition site; other site 296591007811 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 296591007812 DNA binding residues [nucleotide binding] 296591007813 dimerization interface [polypeptide binding]; other site 296591007814 Flp/Fap pilin component; Region: Flp_Fap; cl01585 296591007815 Flp pilus assembly protein, protease CpaA [Posttranslational modification, protein turnover, chaperones / Intracellular trafficking and secretion]; Region: CpaA; COG4960 296591007816 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 296591007817 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 296591007818 Walker A/P-loop; other site 296591007819 ATP binding site [chemical binding]; other site 296591007820 Flp pilus assembly protein CpaB [Intracellular trafficking and secretion]; Region: CpaB; COG3745 296591007821 SAF domains of the flagella basal body P-ring formation protein FlgA and the flp pilus assembly CpaB; Region: SAF_CpaB_FlgA_like; cd11614 296591007822 Flp pilus assembly protein, secretin CpaC [Intracellular trafficking and secretion]; Region: CpaC; COG4964 296591007823 Pilus formation protein N terminal region; Region: T2SS-T3SS_pil_N; pfam13629 296591007824 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 296591007825 Putative Tad-like Flp pilus-assembly; Region: Tad_C; pfam09977 296591007826 TadE-like protein; Region: TadE; pfam07811 296591007827 Flp pilus assembly protein TadG [Intracellular trafficking and secretion]; Region: TadG; COG4961 296591007828 TadE-like protein; Region: TadE; pfam07811 296591007829 Flp pilus assembly protein, ATPase CpaE [Intracellular trafficking and secretion]; Region: CpaE; COG4963 296591007830 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 296591007831 active site 296591007832 phosphorylation site [posttranslational modification] 296591007833 intermolecular recognition site; other site 296591007834 dimerization interface [polypeptide binding]; other site 296591007835 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 296591007836 This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains...; Region: CpaE_like; cd03111 296591007837 Type II/IV secretion system protein; Region: T2SE; pfam00437 296591007838 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 296591007839 ATP binding site [chemical binding]; other site 296591007840 Walker A motif; other site 296591007841 hexamer interface [polypeptide binding]; other site 296591007842 Walker B motif; other site 296591007843 Flp pilus assembly protein TadB [Intracellular trafficking and secretion]; Region: TadB; COG4965 296591007844 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 296591007845 Flp pilus assembly protein TadC [Cell motility and secretion / Intracellular trafficking and secretion]; Region: TadC; COG2064 296591007846 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 296591007847 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 296591007848 binding surface 296591007849 Tetratricopeptide repeat; Region: TPR_16; pfam13432 296591007850 TPR motif; other site 296591007851 Tetratricopeptide repeat; Region: TPR_16; pfam13432 296591007852 LytR cell envelope-related transcriptional attenuator; Region: LytR_C; pfam13399 296591007853 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 296591007854 dimerization domain [polypeptide binding]; other site 296591007855 dimer interface [polypeptide binding]; other site 296591007856 catalytic residues [active] 296591007857 Methylated DNA-protein cysteine methyltransferase [DNA replication, recombination, and repair]; Region: Ada; COG0350 296591007858 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 296591007859 DNA binding site [nucleotide binding] 296591007860 active site 296591007861 hypothetical protein; Provisional; Region: PRK06194 296591007862 classical (c) SDRs; Region: SDR_c; cd05233 296591007863 NAD(P) binding site [chemical binding]; other site 296591007864 active site 296591007865 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cl17182 296591007866 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 296591007867 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 296591007868 C-terminal domain interface [polypeptide binding]; other site 296591007869 GSH binding site (G-site) [chemical binding]; other site 296591007870 dimer interface [polypeptide binding]; other site 296591007871 Glutathione S-transferase, C-terminal domain; Region: GST_C_2; pfam13410 296591007872 N-terminal domain interface [polypeptide binding]; other site 296591007873 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 296591007874 active site 296591007875 Putative NADP-dependent oxidoreductases [General function prediction only]; Region: COG2130 296591007876 Prostaglandin dehydrogenases; Region: PGDH; cd05288 296591007877 NAD(P) binding site [chemical binding]; other site 296591007878 substrate binding site [chemical binding]; other site 296591007879 dimer interface [polypeptide binding]; other site 296591007880 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 296591007881 CoenzymeA binding site [chemical binding]; other site 296591007882 subunit interaction site [polypeptide binding]; other site 296591007883 PHB binding site; other site 296591007884 gluconate 5-dehydrogenase; Provisional; Region: PRK08213 296591007885 classical (c) SDRs; Region: SDR_c; cd05233 296591007886 NAD(P) binding site [chemical binding]; other site 296591007887 active site 296591007888 Stress responsive A/B Barrel Domain; Region: Dabb; smart00886 296591007889 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 296591007890 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 296591007891 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 296591007892 active site 296591007893 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 296591007894 High-affinity nickel-transport protein; Region: NicO; cl00964 296591007895 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 296591007896 PHB binding site; other site 296591007897 acetyl-CoA acetyltransferase; Provisional; Region: PRK07108 296591007898 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 296591007899 dimer interface [polypeptide binding]; other site 296591007900 active site 296591007901 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 296591007902 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 296591007903 substrate binding site [chemical binding]; other site 296591007904 oxyanion hole (OAH) forming residues; other site 296591007905 trimer interface [polypeptide binding]; other site 296591007906 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 296591007907 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 296591007908 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 296591007909 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 296591007910 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 296591007911 Walker A/P-loop; other site 296591007912 ATP binding site [chemical binding]; other site 296591007913 Q-loop/lid; other site 296591007914 ABC transporter signature motif; other site 296591007915 Walker B; other site 296591007916 D-loop; other site 296591007917 H-loop/switch region; other site 296591007918 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 296591007919 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 296591007920 Walker A/P-loop; other site 296591007921 ATP binding site [chemical binding]; other site 296591007922 Q-loop/lid; other site 296591007923 ABC transporter signature motif; other site 296591007924 Walker B; other site 296591007925 D-loop; other site 296591007926 H-loop/switch region; other site 296591007927 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 296591007928 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 296591007929 TM-ABC transporter signature motif; other site 296591007930 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 296591007931 TM-ABC transporter signature motif; other site 296591007932 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 296591007933 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 296591007934 putative ligand binding site [chemical binding]; other site 296591007935 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 296591007936 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 296591007937 dimer interface [polypeptide binding]; other site 296591007938 acyl-activating enzyme (AAE) consensus motif; other site 296591007939 putative active site [active] 296591007940 AMP binding site [chemical binding]; other site 296591007941 putative CoA binding site [chemical binding]; other site 296591007942 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 296591007943 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 296591007944 ligand binding site [chemical binding]; other site 296591007945 flexible hinge region; other site 296591007946 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 296591007947 putative switch regulator; other site 296591007948 non-specific DNA interactions [nucleotide binding]; other site 296591007949 DNA binding site [nucleotide binding] 296591007950 sequence specific DNA binding site [nucleotide binding]; other site 296591007951 putative cAMP binding site [chemical binding]; other site 296591007952 Uncharacterized conserved protein [Function unknown]; Region: COG0397 296591007953 hypothetical protein; Validated; Region: PRK00029 296591007954 methionine sulfoxide reductase B; Provisional; Region: PRK00222 296591007955 SelR domain; Region: SelR; pfam01641 296591007956 intracellular septation protein A; Reviewed; Region: PRK00259 296591007957 Stress-induced morphogen (activity unknown) [Signal transduction mechanisms]; Region: BolA; COG0271 296591007958 SurA N-terminal domain; Region: SurA_N; pfam09312 296591007959 PPIC-type PPIASE domain; Region: Rotamase_3; pfam13616 296591007960 phosphoribosylformylglycinamidine synthase; Provisional; Region: PRK05297 296591007961 AIR (aminoimidazole ribonucleotide) synthase related protein. This family includes Hydrogen expression/formation protein HypE, AIR synthases, FGAM (formylglycinamidine ribonucleotide) synthase and Selenophosphate synthetase (SelD). The N-terminal domain...; Region: PurM-like; cl10019 296591007962 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 296591007963 dimerization interface [polypeptide binding]; other site 296591007964 ATP binding site [chemical binding]; other site 296591007965 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 296591007966 dimerization interface [polypeptide binding]; other site 296591007967 ATP binding site [chemical binding]; other site 296591007968 Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase; Region: GATase1_FGAR_AT; cd01740 296591007969 putative active site [active] 296591007970 catalytic triad [active] 296591007971 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 296591007972 active site 296591007973 PII uridylyl-transferase; Provisional; Region: PRK03059 296591007974 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 296591007975 metal binding triad; other site 296591007976 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 296591007977 Metal dependent phosphohydrolases with conserved 'HD' motif; Region: HDc; cd00077 296591007978 Zn2+ binding site [ion binding]; other site 296591007979 Mg2+ binding site [ion binding]; other site 296591007980 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 296591007981 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 296591007982 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 296591007983 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 296591007984 S-adenosylmethionine binding site [chemical binding]; other site 296591007985 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 296591007986 active site 296591007987 catalytic residues [active] 296591007988 metal binding site [ion binding]; metal-binding site 296591007989 NAD-dependent DNA ligase LigA; Validated; Region: ligA; PRK07956 296591007990 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 296591007991 nucleotide binding pocket [chemical binding]; other site 296591007992 K-X-D-G motif; other site 296591007993 catalytic site [active] 296591007994 NAD-dependent DNA ligase OB-fold domain; Region: DNA_ligase_OB; pfam03120 296591007995 NAD-dependent DNA ligase C4 zinc finger domain; Region: DNA_ligase_ZBD; pfam03119 296591007996 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 296591007997 Dimer interface [polypeptide binding]; other site 296591007998 ZipA C-terminal domain. ZipA, a membrane-anchored protein, is one of at least nine essential gene products necessary for assembly of the septal ring which mediates cell division in E.coli. ZipA and FtsA directly bind FtsZ, a homolog of eukaryotic...; Region: ZipA; cl12038 296591007999 chromosome segregation protein SMC, common bacterial type; Region: SMC_prok_B; TIGR02168 296591008000 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 296591008001 Walker A/P-loop; other site 296591008002 ATP binding site [chemical binding]; other site 296591008003 Q-loop/lid; other site 296591008004 ATP-binding cassette domain of barmotin, a member of the SMC protein family; Region: ABC_SMC_barmotin; cd03278 296591008005 ABC transporter signature motif; other site 296591008006 Walker B; other site 296591008007 D-loop; other site 296591008008 H-loop/switch region; other site 296591008009 cystathionine beta-lyase; Provisional; Region: PRK07050 296591008010 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 296591008011 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 296591008012 catalytic residue [active] 296591008013 Predicted phosphoribosyltransferases [General function prediction only]; Region: COG2236 296591008014 Phosphoribosyl transferase (PRT)-type I domain; Region: PRTases_typeI; cd06223 296591008015 active site 296591008016 Adenylosuccinate synthetase; Region: Adenylsucc_synt; smart00788 296591008017 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 296591008018 GDP-binding site [chemical binding]; other site 296591008019 ACT binding site; other site 296591008020 IMP binding site; other site 296591008021 Histidyl-tRNA synthetase; Region: tRNA-synt_His; pfam13393 296591008022 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 296591008023 dimer interface [polypeptide binding]; other site 296591008024 motif 1; other site 296591008025 active site 296591008026 motif 2; other site 296591008027 motif 3; other site 296591008028 Uncharacterized protein conserved in bacteria (DUF2065); Region: DUF2065; pfam09838 296591008029 Band_7_HflC: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfC (High frequency of lysogenization C). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflC; cd03405 296591008030 Bacterial membrane protein N terminal; Region: HflK_N; pfam12221 296591008031 Band_7_HflK: The band 7 domain of flotillin (reggie) like proteins. This group includes proteins similar to prokaryotic HlfK (High frequency of lysogenization K). Although many members of the band 7 family are lipid raft associated, prokaryote plasma...; Region: Band_7_HflK; cd03404 296591008032 HflK protein; Region: hflK; TIGR01933 296591008033 GTP-binding protein HflX; Region: GTP_HflX; TIGR03156 296591008034 GTP-binding GTPase N-terminal; Region: GTP-bdg_N; pfam13167 296591008035 HflX GTPase family; Region: HflX; cd01878 296591008036 G1 box; other site 296591008037 GTP/Mg2+ binding site [chemical binding]; other site 296591008038 Switch I region; other site 296591008039 G2 box; other site 296591008040 G3 box; other site 296591008041 Switch II region; other site 296591008042 G4 box; other site 296591008043 G5 box; other site 296591008044 bacterial Hfq-like; Region: Hfq; cd01716 296591008045 hexamer interface [polypeptide binding]; other site 296591008046 Sm1 motif; other site 296591008047 RNA binding site [nucleotide binding]; other site 296591008048 Sm2 motif; other site 296591008049 GTP-binding protein Der; Reviewed; Region: PRK00093 296591008050 EngA1 GTPase contains the first domain of EngA; Region: EngA1; cd01894 296591008051 G1 box; other site 296591008052 GTP/Mg2+ binding site [chemical binding]; other site 296591008053 Switch I region; other site 296591008054 G2 box; other site 296591008055 Switch II region; other site 296591008056 G3 box; other site 296591008057 G4 box; other site 296591008058 G5 box; other site 296591008059 EngA2 GTPase contains the second domain of EngA; Region: EngA2; cd01895 296591008060 G1 box; other site 296591008061 GTP/Mg2+ binding site [chemical binding]; other site 296591008062 Switch I region; other site 296591008063 G2 box; other site 296591008064 G3 box; other site 296591008065 Switch II region; other site 296591008066 G4 box; other site 296591008067 G5 box; other site 296591008068 outer membrane assembly lipoprotein YfgL; Region: assembly_YfgL; TIGR03300 296591008069 PQQ-dependent dehydrogenases and related proteins; Region: PQQ_DH_like; cl11493 296591008070 Trp docking motif [polypeptide binding]; other site 296591008071 active site 296591008072 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2976 296591008073 Uncharacterized protein conserved in bacteria (DUF2133); Region: DUF2133; pfam09976 296591008074 histidyl-tRNA synthetase; Reviewed; Region: hisS; PRK00037 296591008075 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 296591008076 dimer interface [polypeptide binding]; other site 296591008077 motif 1; other site 296591008078 active site 296591008079 motif 2; other site 296591008080 motif 3; other site 296591008081 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 296591008082 anticodon binding site; other site 296591008083 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Reviewed; Region: ispG; PRK00366 296591008084 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 296591008085 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase; Validated; Region: PRK00694 296591008086 Helix-turn-helix domain; Region: HTH_25; pfam13413 296591008087 Domain of unknown function (DUF4115); Region: DUF4115; pfam13464 296591008088 type IV pilus biogenesis/stability protein PilW; Region: type_IV_pilW; TIGR02521 296591008089 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 296591008090 TPR motif; other site 296591008091 binding surface 296591008092 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 296591008093 binding surface 296591008094 TPR motif; other site 296591008095 Predicted Fe-S-cluster redox enzyme [General function prediction only]; Region: COG0820 296591008096 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 296591008097 active site 296591008098 multimer interface [polypeptide binding]; other site 296591008099 16S rRNA uridine-516 pseudouridylate synthase and related pseudouridylate synthases [Translation, ribosomal structure and biogenesis]; Region: RsuA; COG1187 296591008100 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 296591008101 RNA binding surface [nucleotide binding]; other site 296591008102 Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi); Region: PseudoU_synth; cl00130 296591008103 active site 296591008104 Putative transcriptional regulators (Ypuh-like); Region: DUF387; pfam04079 296591008105 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 296591008106 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 296591008107 RNA binding surface [nucleotide binding]; other site 296591008108 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 296591008109 active site 296591008110 outer membrane assembly lipoprotein YfiO; Region: OM_YfiO; TIGR03302 296591008111 DnaQ family exonuclease/DinG family helicase, putative; Region: dinG_rel; TIGR01407 296591008112 CRISPR/Cas system-associated DinG family helicase Csf4; Region: Csf4_U; cl17460 296591008113 Helicase C-terminal domain; Region: Helicase_C_2; pfam13307 296591008114 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 296591008115 active site 296591008116 Predicted ATPase [General function prediction only]; Region: COG1485 296591008117 dihydrolipoamide dehydrogenase; Validated; Region: PRK06327 296591008118 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 296591008119 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 296591008120 dihydrolipoamide succinyltransferase; Validated; Region: PRK05704 296591008121 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 296591008122 E3 interaction surface; other site 296591008123 lipoyl attachment site [posttranslational modification]; other site 296591008124 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 296591008125 2-oxoglutarate dehydrogenase E1 component; Reviewed; Region: sucA; PRK09404 296591008126 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 296591008127 TPP-binding site [chemical binding]; other site 296591008128 Transketolase, pyrimidine binding domain; Region: Transket_pyr; pfam02779 296591008129 5'-nucleotidase/2',3'-cyclic phosphodiesterase and related esterases [Nucleotide transport and metabolism]; Region: UshA; COG0737 296591008130 Thermus thermophilus SoxB and related proteins, N-terminal metallophosphatase domain; Region: MPP_SoxB_N; cd07411 296591008131 active site 296591008132 metal binding site [ion binding]; metal-binding site 296591008133 5'-nucleotidase, C-terminal domain; Region: 5_nucleotid_C; pfam02872 296591008134 Sulphur oxidation protein SoxZ; Region: SoxZ; pfam08770 296591008135 Sulfur oxidation protein SoxY; Region: SoxY; pfam13501 296591008136 Cytochrome c; Region: Cytochrom_C; cl11414 296591008137 Sulfite oxidase (SO) family, molybdopterin binding domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate reductase (NR) and sulfite oxidase (SO). SO catalyzes the...; Region: SO_family_Moco; cl00199 296591008138 Moco binding site; other site 296591008139 metal coordination site [ion binding]; other site 296591008140 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 296591008141 dimerization interface [polypeptide binding]; other site 296591008142 putative DNA binding site [nucleotide binding]; other site 296591008143 putative Zn2+ binding site [ion binding]; other site 296591008144 propionyl-CoA synthetase; Provisional; Region: prpE; PRK10524 296591008145 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 296591008146 acyl-activating enzyme (AAE) consensus motif; other site 296591008147 AMP binding site [chemical binding]; other site 296591008148 active site 296591008149 CoA binding site [chemical binding]; other site 296591008150 Yhdh putative quinone oxidoreductases; Region: MDR_yhdh; cd08288 296591008151 putative quinone oxidoreductase, YhdH/YhfP family; Region: oxido_YhdH; TIGR02823 296591008152 NADP binding site [chemical binding]; other site 296591008153 dimer interface [polypeptide binding]; other site 296591008154 Protein of unknown function (DUF1810); Region: DUF1810; pfam08837 296591008155 AAA domain; Region: AAA_22; pfam13401 296591008156 Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases); Region: Ras_like_GTPase; cl17170 296591008157 G1 box; other site 296591008158 GTP/Mg2+ binding site [chemical binding]; other site 296591008159 Hypothetical protein TTHB210, a sigma(E)-regulated gene product found in Thermus thermophilus, and similar proteins; Region: TTHB210-like; cd11669 296591008160 oligomer interface [polypeptide binding]; other site 296591008161 ChaP, an enzyme involved in the biosynthesis of the antitumor agent chartreusin (cha); and similar proteins; Region: ChaP_like; cd08351 296591008162 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 296591008163 metal binding site [ion binding]; metal-binding site 296591008164 Protein-L-isoaspartate carboxylmethyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: Pcm; COG2518 296591008165 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 296591008166 S-adenosylmethionine binding site [chemical binding]; other site 296591008167 Putative 2OG-Fe(II) oxygenase; Region: 2OG-FeII_Oxy_5; pfam13759 296591008168 Ketosteroid isomerase-related protein [General function prediction only]; Region: COG3631 296591008169 ChaP, an enzyme involved in the biosynthesis of the antitumor agent chartreusin (cha); and similar proteins; Region: ChaP_like; cd08351 296591008170 metal binding site [ion binding]; metal-binding site 296591008171 Methyltransferase domain; Region: Methyltransf_31; pfam13847 296591008172 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 296591008173 S-adenosylmethionine binding site [chemical binding]; other site 296591008174 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 296591008175 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 296591008176 substrate binding pocket [chemical binding]; other site 296591008177 membrane-bound complex binding site; other site 296591008178 hinge residues; other site 296591008179 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 296591008180 Isochorismatase family; Region: Isochorismatase; pfam00857 296591008181 catalytic triad [active] 296591008182 dimer interface [polypeptide binding]; other site 296591008183 conserved cis-peptide bond; other site 296591008184 Protein of unknown function (DUF2721); Region: DUF2721; pfam11026 296591008185 HipA N-terminal domain; Region: Couple_hipA; pfam13657 296591008186 HipA-like N-terminal domain; Region: HipA_N; pfam07805 296591008187 HipA-like C-terminal domain; Region: HipA_C; pfam07804 296591008188 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 296591008189 putative chaperone; Provisional; Region: PRK11678 296591008190 Escherichia coli YegD, a putative chaperone protein, and related proteins; Region: YegD_like; cd10231 296591008191 nucleotide binding site [chemical binding]; other site 296591008192 putative NEF/HSP70 interaction site [polypeptide binding]; other site 296591008193 SBD interface [polypeptide binding]; other site 296591008194 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3558 296591008195 SnoaL-like domain; Region: SnoaL_2; pfam12680 296591008196 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 296591008197 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 296591008198 virulence factor Mce family protein; Region: Mtu_fam_mce; TIGR00996 296591008199 mce related protein; Region: MCE; pfam02470 296591008200 Permease; Region: Permease; pfam02405 296591008201 LysE type translocator; Region: LysE; cl00565 296591008202 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 296591008203 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591008204 DNA-binding site [nucleotide binding]; DNA binding site 296591008205 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 296591008206 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591008207 homodimer interface [polypeptide binding]; other site 296591008208 catalytic residue [active] 296591008209 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 296591008210 Uncharacterized ACR, YggU family COG1872; Region: DUF167; cl00811 296591008211 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 296591008212 homotrimer interaction site [polypeptide binding]; other site 296591008213 putative active site [active] 296591008214 Glucose / Sorbosone dehydrogenase; Region: GSDH; pfam07995 296591008215 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 296591008216 dehydrogenase, PQQ-dependent, s-GDH family; Region: non_repeat_PQQ; TIGR03606 296591008217 Cell wall-associated hydrolases (invasion-associated proteins) [Cell envelope biogenesis, outer membrane]; Region: Spr; COG0791 296591008218 NlpC/P60 family; Region: NLPC_P60; pfam00877 296591008219 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591008220 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 296591008221 E3 interaction surface; other site 296591008222 lipoyl attachment site [posttranslational modification]; other site 296591008223 dihydrolipoamide dehydrogenase; Reviewed; Region: PRK06467 296591008224 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 296591008225 Pyridine nucleotide-disulphide oxidoreductase, dimerisation domain; Region: Pyr_redox_dim; pfam02852 296591008226 proteasome_protease_HslV. This group contains the eukaryotic proteosome alpha and beta subunits and the prokaryotic protease hslV subunit. Proteasomes are large multimeric self-compartmentalizing proteases, involved in the clearance of misfolded proteins; Region: proteasome_protease_HslV; cd01906 296591008227 active site 296591008228 dihydrolipoamide acetyltransferase; Reviewed; Region: PRK11855 296591008229 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 296591008230 E3 interaction surface; other site 296591008231 lipoyl attachment site [posttranslational modification]; other site 296591008232 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 296591008233 E3 interaction surface; other site 296591008234 lipoyl attachment site [posttranslational modification]; other site 296591008235 e3 binding domain; Region: E3_binding; pfam02817 296591008236 2-oxoacid dehydrogenases acyltransferase (catalytic domain); Region: 2-oxoacid_dh; pfam00198 296591008237 pyruvate dehydrogenase subunit E1; Reviewed; Region: aceE; PRK09405 296591008238 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 296591008239 dimer interface [polypeptide binding]; other site 296591008240 TPP-binding site [chemical binding]; other site 296591008241 PAS domain S-box; Region: sensory_box; TIGR00229 296591008242 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 296591008243 putative active site [active] 296591008244 heme pocket [chemical binding]; other site 296591008245 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 296591008246 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 296591008247 dimer interface [polypeptide binding]; other site 296591008248 phosphorylation site [posttranslational modification] 296591008249 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 296591008250 ATP binding site [chemical binding]; other site 296591008251 Mg2+ binding site [ion binding]; other site 296591008252 G-X-G motif; other site 296591008253 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 296591008254 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 296591008255 active site 296591008256 phosphorylation site [posttranslational modification] 296591008257 intermolecular recognition site; other site 296591008258 dimerization interface [polypeptide binding]; other site 296591008259 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 296591008260 DNA binding residues [nucleotide binding] 296591008261 dimerization interface [polypeptide binding]; other site 296591008262 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional; Region: PRK14189 296591008263 Tetrahydrofolate dehydrogenase/cyclohydrolase, catalytic domain; Region: THF_DHG_CYH; pfam00763 296591008264 NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase; Region: NAD_bind_m-THF_DH_Cyclohyd; cd01080 296591008265 homodimer interface [polypeptide binding]; other site 296591008266 NADP binding site [chemical binding]; other site 296591008267 substrate binding site [chemical binding]; other site 296591008268 Domain of unknown function (DUF4149); Region: DUF4149; pfam13664 296591008269 transcription elongation factor GreA; Reviewed; Region: greA; PRK00226 296591008270 Transcription elongation factor, N-terminal; Region: GreA_GreB_N; pfam03449 296591008271 Transcription elongation factor, GreA/GreB, C-term; Region: GreA_GreB; pfam01272 296591008272 carbamoyl phosphate synthase large subunit; Reviewed; Region: carB; PRK05294 296591008273 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 296591008274 Carbamoyl-phosphate synthase L chain, ATP binding domain; Region: CPSase_L_D2; pfam02786 296591008275 Carbamoyl-phosphate synthetase large chain, oligomerisation domain; Region: CPSase_L_D3; pfam02787 296591008276 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 296591008277 ATP-grasp domain; Region: ATP-grasp_4; cl17255 296591008278 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 296591008279 IMP binding site; other site 296591008280 dimer interface [polypeptide binding]; other site 296591008281 interdomain contacts; other site 296591008282 partial ornithine binding site; other site 296591008283 carbamoyl phosphate synthase small subunit; Reviewed; Region: PRK12564 296591008284 Carbamoyl-phosphate synthase small chain, CPSase domain; Region: CPSase_sm_chain; smart01097 296591008285 Small chain of the glutamine-dependent form of carbamoyl phosphate synthase, CPSase II; Region: GATase1_CPSase; cd01744 296591008286 catalytic site [active] 296591008287 subunit interface [polypeptide binding]; other site 296591008288 rRNA methylases [Translation, ribosomal structure and biogenesis]; Region: SpoU; COG0566 296591008289 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 296591008290 bacterial Ribonuclease HII-like; Region: RNase_HII_bacteria_HII_like; cd07182 296591008291 RNA/DNA hybrid binding site [nucleotide binding]; other site 296591008292 active site 296591008293 lipid-A-disaccharide synthase; Reviewed; Region: lpxB; PRK00025 296591008294 ipid-A-disaccharide synthase; Provisional; Region: PRK14089 296591008295 UDP-N-acetylglucosamine acyltransferase; Provisional; Region: PRK05289 296591008296 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 296591008297 active site 296591008298 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 296591008299 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase; Provisional; Region: lpxD; PRK00892 296591008300 UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase, LpxD; Region: LpxD; pfam04613 296591008301 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 296591008302 trimer interface [polypeptide binding]; other site 296591008303 active site 296591008304 UDP-GlcNAc binding site [chemical binding]; other site 296591008305 lipid binding site [chemical binding]; lipid-binding site 296591008306 periplasmic chaperone; Provisional; Region: PRK10780 296591008307 Outer membrane protein (OmpH-like); Region: OmpH; smart00935 296591008308 outer membrane protein assembly complex, YaeT protein; Region: OM_YaeT; TIGR03303 296591008309 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 296591008310 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 296591008311 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 296591008312 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 296591008313 Surface antigen variable number repeat; Region: Surf_Ag_VNR; pfam07244 296591008314 Surface antigen; Region: Bac_surface_Ag; pfam01103 296591008315 zinc metallopeptidase RseP; Provisional; Region: PRK10779 296591008316 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 296591008317 active site 296591008318 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 296591008319 protein binding site [polypeptide binding]; other site 296591008320 Site-2 protease (S2P) class of zinc metalloproteases (MEROPS family M50) cleaves transmembrane domains of substrate proteins, regulating intramembrane proteolysis (RIP) of diverse signal transduction mechanisms. Members of this family use proteolytic...; Region: S2P-M50; cl10020 296591008321 putative substrate binding region [chemical binding]; other site 296591008322 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Provisional; Region: PRK05447 296591008323 1-deoxy-D-xylulose 5-phosphate reductoisomerase; Region: DXP_reductoisom; pfam02670 296591008324 1-deoxy-D-xylulose 5-phosphate reductoisomerase C-terminal; Region: DXP_redisom_C; pfam08436 296591008325 DXP reductoisomerase C-terminal domain; Region: DXPR_C; pfam13288 296591008326 Cytidylyltransferase family; Region: CTP_transf_1; pfam01148 296591008327 CDP-diglyceride synthetase [Lipid metabolism]; Region: CdsA; COG0575 296591008328 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 296591008329 Putative undecaprenyl diphosphate synthase; Region: Prenyltransf; pfam01255 296591008330 catalytic residue [active] 296591008331 putative FPP diphosphate binding site; other site 296591008332 putative FPP binding hydrophobic cleft; other site 296591008333 dimer interface [polypeptide binding]; other site 296591008334 putative IPP diphosphate binding site; other site 296591008335 ribosome recycling factor; Reviewed; Region: frr; PRK00083 296591008336 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 296591008337 hinge region; other site 296591008338 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 296591008339 putative nucleotide binding site [chemical binding]; other site 296591008340 uridine monophosphate binding site [chemical binding]; other site 296591008341 homohexameric interface [polypeptide binding]; other site 296591008342 elongation factor Ts; Provisional; Region: tsf; PRK09377 296591008343 UBA/TS-N domain; Region: UBA; pfam00627 296591008344 Elongation factor TS; Region: EF_TS; pfam00889 296591008345 Elongation factor TS; Region: EF_TS; pfam00889 296591008346 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 296591008347 rRNA interaction site [nucleotide binding]; other site 296591008348 S8 interaction site; other site 296591008349 putative laminin-1 binding site; other site 296591008350 amidase; Provisional; Region: PRK07056 296591008351 Amidase; Region: Amidase; cl11426 296591008352 D-amino acid dehydrogenase small subunit; Validated; Region: PRK00711 296591008353 hydroxyglutarate oxidase; Provisional; Region: PRK11728 296591008354 Uncharacterized conserved protein [Function unknown]; Region: COG0062 296591008355 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 296591008356 putative substrate binding site [chemical binding]; other site 296591008357 putative ATP binding site [chemical binding]; other site 296591008358 YGGT family; Region: YGGT; pfam02325 296591008359 YGGT family; Region: YGGT; pfam02325 296591008360 ribonuclease R; Region: RNase_R; TIGR02063 296591008361 Ribonuclease B OB domain; Region: OB_RNB; pfam08206 296591008362 RNB domain; Region: RNB; pfam00773 296591008363 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 296591008364 RNA binding site [nucleotide binding]; other site 296591008365 ribosomal protein S12 methylthiotransferase; Provisional; Region: rimO; PRK14862 296591008366 Uncharacterized protein family UPF0004; Region: UPF0004; pfam00919 296591008367 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 296591008368 FeS/SAM binding site; other site 296591008369 polyhydroxyalkanoate synthesis repressor PhaR; Region: PHA_reg_PhaR; TIGR01848 296591008370 PHB/PHA accumulation regulator DNA-binding domain; Region: PHB_acc_N; pfam07879 296591008371 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 296591008372 PHB accumulation regulatory domain; Region: PHB_acc; pfam05233 296591008373 Guanosine polyphosphate pyrophosphohydrolases/synthetases [Signal transduction mechanisms / Transcription]; Region: SpoT; COG0317 296591008374 HD domain; Region: HD_4; pfam13328 296591008375 Nucleotidyltransferase (NT) domain of RelA- and SpoT-like ppGpp synthetases and hydrolases; Region: NT_Rel-Spo_like; cd05399 296591008376 synthetase active site [active] 296591008377 NTP binding site [chemical binding]; other site 296591008378 metal binding site [ion binding]; metal-binding site 296591008379 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 296591008380 ACT domain found C-terminal of the RelA/SpoT domains; Region: ACT_RelA-SpoT; cd04876 296591008381 alpha/beta hydrolase fold; Region: Abhydrolase_1; pfam00561 296591008382 3-hydroxybutyrate dehydrogenase; Provisional; Region: PRK12429 296591008383 d-3-hydroxybutyrate dehydrogenase (HBDH), classical (c) SDRs; Region: HBDH_SDR_c; cd08940 296591008384 NAD binding site [chemical binding]; other site 296591008385 homotetramer interface [polypeptide binding]; other site 296591008386 homodimer interface [polypeptide binding]; other site 296591008387 substrate binding site [chemical binding]; other site 296591008388 active site 296591008389 hydroxyglutarate oxidase; Provisional; Region: PRK11728 296591008390 Predicted dehydrogenase [General function prediction only]; Region: COG0579 296591008391 Arginase-like and histone-like hydrolases; Region: Arginase_HDAC; cl17011 296591008392 Histone deacetylase class IIa; Region: HDAC_classII_APAH; cd10001 296591008393 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 296591008394 active site 296591008395 Zn binding site [ion binding]; other site 296591008396 N-formylglutamate amidohydrolase; Region: FGase; pfam05013 296591008397 Outer membrane protein beta-barrel domain; Region: OMP_b-brl; cl17254 296591008398 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591008399 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591008400 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 296591008401 dimerization interface [polypeptide binding]; other site 296591008402 Predicted membrane protein [Function unknown]; Region: COG4125 296591008403 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 296591008404 Bacterial Transmembrane Pair family; Region: BTP; pfam05232 296591008405 Protein of unknown function (DUF541); Region: SIMPL; pfam04402 296591008406 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 296591008407 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 296591008408 active site 296591008409 phosphorylation site [posttranslational modification] 296591008410 intermolecular recognition site; other site 296591008411 dimerization interface [polypeptide binding]; other site 296591008412 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 296591008413 DNA binding site [nucleotide binding] 296591008414 osmolarity sensor protein; Provisional; Region: envZ; PRK09467 296591008415 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 296591008416 dimerization interface [polypeptide binding]; other site 296591008417 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 296591008418 dimer interface [polypeptide binding]; other site 296591008419 phosphorylation site [posttranslational modification] 296591008420 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 296591008421 ATP binding site [chemical binding]; other site 296591008422 Mg2+ binding site [ion binding]; other site 296591008423 G-X-G motif; other site 296591008424 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 296591008425 homotrimer interaction site [polypeptide binding]; other site 296591008426 zinc binding site [ion binding]; other site 296591008427 CDP-binding sites; other site 296591008428 CDP-ME synthetase is involved in mevalonate-independent isoprenoid production; Region: CDP-ME_synthetase; cd02516 296591008429 substrate binding site; other site 296591008430 dimer interface; other site 296591008431 Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]; Region: Mfd; COG1197 296591008432 CarD-like/TRCF domain; Region: CarD_TRCF; smart01058 296591008433 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 296591008434 ATP binding site [chemical binding]; other site 296591008435 putative Mg++ binding site [ion binding]; other site 296591008436 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 296591008437 nucleotide binding region [chemical binding]; other site 296591008438 ATP-binding site [chemical binding]; other site 296591008439 This domain is found in proteins necessary for strand-specific repair in DNA such as TRCF in Escherichia coli; Region: TRCF; smart00982 296591008440 Virulence-associated protein and related proteins [Function unknown]; Region: VagC; COG4456 296591008441 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 296591008442 oligomeric interface; other site 296591008443 putative active site [active] 296591008444 homodimer interface [polypeptide binding]; other site 296591008445 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 296591008446 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 296591008447 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 296591008448 motif II; other site 296591008449 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 296591008450 ABC-type multidrug transport system, ATPase and permease components [Defense mechanisms]; Region: MdlB; COG1132 296591008451 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 296591008452 Walker A/P-loop; other site 296591008453 ATP binding site [chemical binding]; other site 296591008454 Q-loop/lid; other site 296591008455 ABC transporter signature motif; other site 296591008456 Walker B; other site 296591008457 D-loop; other site 296591008458 H-loop/switch region; other site 296591008459 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 296591008460 active site 296591008461 Dienelactone hydrolase and related enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG0412 296591008462 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 296591008463 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 296591008464 substrate binding pocket [chemical binding]; other site 296591008465 membrane-bound complex binding site; other site 296591008466 hinge residues; other site 296591008467 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 296591008468 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 296591008469 dimer interface [polypeptide binding]; other site 296591008470 conserved gate region; other site 296591008471 putative PBP binding loops; other site 296591008472 ABC-ATPase subunit interface; other site 296591008473 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 296591008474 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 296591008475 Walker A/P-loop; other site 296591008476 ATP binding site [chemical binding]; other site 296591008477 Q-loop/lid; other site 296591008478 ABC transporter signature motif; other site 296591008479 Walker B; other site 296591008480 D-loop; other site 296591008481 H-loop/switch region; other site 296591008482 Cytochrome b(N-terminal)/b6/petB; Region: Cytochrom_B_N; pfam00033 296591008483 Sulfite oxidase and related enzymes [General function prediction only]; Region: COG2041 296591008484 bacterial subgroup of the sulfite oxidase (SO) family of molybdopterin binding domains. This domain is found in a variety of oxidoreductases. Common features of all known members of this family, like sulfite oxidase and nitrite reductase, are that they...; Region: bact_SO_family_Moco; cd02108 296591008485 Moco binding site; other site 296591008486 metal coordination site [ion binding]; other site 296591008487 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 296591008488 Transposase; Region: DDE_Tnp_ISL3; pfam01610 296591008489 Protein of unknown function (DUF3820); Region: DUF3820; pfam12843 296591008490 translation initiation factor Sui1; Validated; Region: PRK06824 296591008491 Homologs of eIF1/SUI1 including Escherichia coli YciH; Region: YciH_like; cd11567 296591008492 putative rRNA binding site [nucleotide binding]; other site 296591008493 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 296591008494 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 296591008495 phosphopeptide binding site; other site 296591008496 DEDDy 3'-5' exonuclease domain of WRN and similar proteins; Region: WRN_exo; cd06141 296591008497 catalytic site [active] 296591008498 putative active site [active] 296591008499 putative substrate binding site [chemical binding]; other site 296591008500 Streptogramin lyase [Defense mechanisms]; Region: Vgb; COG4257 296591008501 methionine sulfoxide reductase B; Provisional; Region: PRK00222 296591008502 SelR domain; Region: SelR; pfam01641 296591008503 methionine sulfoxide reductase A; Provisional; Region: PRK13014 296591008504 Domain of unknown function (DUF4145); Region: DUF4145; pfam13643 296591008505 Homeodomain-like domain; Region: HTH_23; pfam13384 296591008506 Winged helix-turn helix; Region: HTH_29; pfam13551 296591008507 Homeodomain-like domain; Region: HTH_32; pfam13565 296591008508 DDE superfamily endonuclease; Region: DDE_3; pfam13358 296591008509 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 296591008510 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 296591008511 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 296591008512 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591008513 homodimer interface [polypeptide binding]; other site 296591008514 catalytic residue [active] 296591008515 Predicted EndoIII-related endonuclease [DNA replication, recombination, and repair]; Region: Nth; COG0177 296591008516 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 296591008517 minor groove reading motif; other site 296591008518 helix-hairpin-helix signature motif; other site 296591008519 substrate binding pocket [chemical binding]; other site 296591008520 active site 296591008521 Iron-sulfur binding domain of endonuclease III; Region: EndIII_4Fe-2S; cl15304 296591008522 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 296591008523 S-adenosylmethionine binding site [chemical binding]; other site 296591008524 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 296591008525 Ligand Binding Site [chemical binding]; other site 296591008526 enoyl-CoA hydratase; Provisional; Region: PRK06144 296591008527 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 296591008528 substrate binding site [chemical binding]; other site 296591008529 oxyanion hole (OAH) forming residues; other site 296591008530 trimer interface [polypeptide binding]; other site 296591008531 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 296591008532 CoA-transferase family III; Region: CoA_transf_3; pfam02515 296591008533 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591008534 Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT); Region: AGAT_like; cd06451 296591008535 homodimer interface [polypeptide binding]; other site 296591008536 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591008537 catalytic residue [active] 296591008538 Transcriptional regulators [Transcription]; Region: GntR; COG1802 296591008539 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591008540 DNA-binding site [nucleotide binding]; DNA binding site 296591008541 FCD domain; Region: FCD; pfam07729 296591008542 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 296591008543 FAD binding domain; Region: FAD_binding_4; pfam01565 296591008544 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 296591008545 Cysteine-rich domain; Region: CCG; pfam02754 296591008546 Fructose-1-phosphate kinase and related fructose-6-phosphate kinase (PfkB) [Carbohydrate transport and metabolism]; Region: FruK; COG1105 296591008547 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 296591008548 putative substrate binding site [chemical binding]; other site 296591008549 putative ATP binding site [chemical binding]; other site 296591008550 phosphoenolpyruvate synthase; Validated; Region: PRK06464 296591008551 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 296591008552 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 296591008553 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 296591008554 FOG: CBS domain [General function prediction only]; Region: COG0517 296591008555 The CBS domain, named after human CBS, is a small domain originally identified in cystathionine beta-synthase and is subsequently found in a wide range of different proteins. CBS domains usually occur in tandem repeats. They associate to form a so-called...; Region: CBS_pair; cd02205 296591008556 cobyric acid synthase; Provisional; Region: PRK00784 296591008557 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 296591008558 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 296591008559 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyric Acid Synthase (CobQ); Region: GATase1_CobQ; cd01750 296591008560 catalytic triad [active] 296591008561 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 296591008562 Histidinol-phosphate/aromatic aminotransferase and cobyric acid decarboxylase [Amino acid transport and metabolism]; Region: HisC; COG0079 296591008563 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 296591008564 catalytic residue [active] 296591008565 CobD/Cbib protein; Region: CobD_Cbib; pfam03186 296591008566 Proteins of this family catalyze the reduction of flavin or nitrocompounds using NAD(P)H as electron donor in a obligatory two-electron transfer, utilizing FMN or FAD as cofactor. They are often found to be homodimers. Enzymes of this family are...; Region: Nitro_FMN_reductase; cl00514 296591008567 FMN binding site [chemical binding]; other site 296591008568 dimer interface [polypeptide binding]; other site 296591008569 ATP:corrinoid adenosyltransferase [Coenzyme metabolism]; Region: BtuR; COG2109 296591008570 ATP:corrinoid adenosyltransferase BtuR/CobO/CobP. This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer; Region: CobA_CobO_BtuR; cd00561 296591008571 homodimer interface [polypeptide binding]; other site 296591008572 Walker A motif; other site 296591008573 ATP binding site [chemical binding]; other site 296591008574 hydroxycobalamin binding site [chemical binding]; other site 296591008575 Walker B motif; other site 296591008576 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 296591008577 active site 296591008578 SAM binding site [chemical binding]; other site 296591008579 homodimer interface [polypeptide binding]; other site 296591008580 Thioredoxin (TRX)-like [2Fe-2S] Ferredoxin (Fd) family; composed of [2Fe-2S] Fds with a TRX fold (TRX-like Fds) and proteins containing domains similar to TRX-like Fd including formate dehydrogenases, NAD-reducing hydrogenases and the subunit E of NADH:...; Region: TRX_Fd_family; cd02980 296591008581 dimer interface [polypeptide binding]; other site 296591008582 [2Fe-2S] cluster binding site [ion binding]; other site 296591008583 Precorrin-3B C(17)-methyltransferase (CobJ/CbiH); Region: Precorrin_3B_C17_MT; cd11646 296591008584 active site 296591008585 SAM binding site [chemical binding]; other site 296591008586 homodimer interface [polypeptide binding]; other site 296591008587 Probable cobalt transporter subunit (CbtA); Region: CbtA; pfam09490 296591008588 Cobalamin synthesis G C-terminus; Region: CbiG_C; pfam01890 296591008589 ABC-type enterobactin transport system, permease component [Inorganic ion transport and metabolism]; Region: FepG; COG4779 296591008590 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 296591008591 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 296591008592 ABC-ATPase subunit interface; other site 296591008593 dimer interface [polypeptide binding]; other site 296591008594 putative PBP binding regions; other site 296591008595 Metal binding protein TroA_a. These proteins are predicted to function as initial receptors in ABC transport of metal ions in eubacteria. They belong to the TroA superfamily of helical backbone metal receptor proteins that share a distinct fold and...; Region: TroA_a; cd01148 296591008596 proposed F420-0 ABC transporter, periplasmic F420-0 binding protein; Region: F420-O_ABCperi; TIGR03868 296591008597 putative ligand binding residues [chemical binding]; other site 296591008598 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 296591008599 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 296591008600 Walker A/P-loop; other site 296591008601 ATP binding site [chemical binding]; other site 296591008602 Q-loop/lid; other site 296591008603 ABC transporter signature motif; other site 296591008604 Walker B; other site 296591008605 D-loop; other site 296591008606 H-loop/switch region; other site 296591008607 Cobalamin synthesis G N-terminal; Region: CbiG_N; pfam11760 296591008608 Cobalamin biosynthesis central region; Region: CbiG_mid; pfam11761 296591008609 Precorrin-2 C20-methyltransferase, also named CobI or CbiL; Region: Precorrin_2_C20_MT; cd11645 296591008610 active site 296591008611 SAM binding site [chemical binding]; other site 296591008612 homodimer interface [polypeptide binding]; other site 296591008613 Precorrin-6Y methyltransferase, the cobalamin biosynthesis enzyme CbiE; Region: Precorrin-6Y-methylase; cd11644 296591008614 active site 296591008615 putative homodimer interface [polypeptide binding]; other site 296591008616 SAM binding site [chemical binding]; other site 296591008617 Precorrin-6B methylase 2 [Coenzyme metabolism]; Region: CobL; COG2242 296591008618 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 296591008619 S-adenosylmethionine binding site [chemical binding]; other site 296591008620 cobalt-precorrin-6A synthase; Reviewed; Region: cbiD; PRK00075 296591008621 Precorrin-8X methylmutase; Region: CbiC; pfam02570 296591008622 cobalt-precorrin-8X methylmutase; Validated; Region: cbiC; cl00913 296591008623 Sirohydrochlorin ferrochelatase [Inorganic ion transport and metabolism]; Region: COG2138 296591008624 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), N-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_N; cd03416 296591008625 putative active site [active] 296591008626 Sirohydrochlorin cobalt chelatase (CbiX) and sirohydrochlorin iron chelatase (SirB), C-terminal domain. SirB catalyzes the ferro-chelation of sirohydrochlorin to siroheme, the prosthetic group of sulfite and nitrite reductases. CbiX is a cobaltochelatase; Region: CbiX_SirB_C; cd03414 296591008627 putative active site [active] 296591008628 Precorrin-4 C11-methyltransferase (CbiF/CobM); Region: Precorrin-4_C11-MT; cd11641 296591008629 active site 296591008630 SAM binding site [chemical binding]; other site 296591008631 homodimer interface [polypeptide binding]; other site 296591008632 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 296591008633 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 296591008634 Walker A/P-loop; other site 296591008635 ATP binding site [chemical binding]; other site 296591008636 Q-loop/lid; other site 296591008637 ABC transporter signature motif; other site 296591008638 Walker B; other site 296591008639 D-loop; other site 296591008640 H-loop/switch region; other site 296591008641 Transmembrane subunit (TM), of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters involved in the uptake of siderophores, heme, vitamin B12, or the divalent cations Mg2+ and Zn2+. PBP-dependent ABC transporters consist of...; Region: TM_ABC_iron-siderophores_like; cl00462 296591008642 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 296591008643 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 296591008644 putative PBP binding regions; other site 296591008645 ABC-ATPase subunit interface; other site 296591008646 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 296591008647 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 296591008648 intersubunit interface [polypeptide binding]; other site 296591008649 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 296591008650 homotrimer interface [polypeptide binding]; other site 296591008651 Walker A motif; other site 296591008652 GTP binding site [chemical binding]; other site 296591008653 Walker B motif; other site 296591008654 Cobalamin binding protein BtuF. These proteins have been shown to function as initial receptors in ABC transport of vitamin B12 (cobalamin) in eubacterial and some archaeal species. They belong to the TroA superfamily of helical backbone metal receptor...; Region: BtuF; cd01144 296591008655 Periplasmic binding protein; Region: Peripla_BP_2; pfam01497 296591008656 cobalamin binding residues [chemical binding]; other site 296591008657 putative BtuC binding residues; other site 296591008658 dimer interface [polypeptide binding]; other site 296591008659 cobyrinic acid a,c-diamide synthase; Validated; Region: PRK01077 296591008660 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 296591008661 Type 1 glutamine amidotransferase (GATase1) domain found in Cobyrinic Acid a,c-Diamide Synthase; Region: GATase1_CobB; cd03130 296591008662 catalytic triad [active] 296591008663 Outer membrane receptor proteins, mostly Fe transport [Inorganic ion transport and metabolism]; Region: CirA; COG1629 296591008664 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 296591008665 N-terminal plug; other site 296591008666 ligand-binding site [chemical binding]; other site 296591008667 Cell division protein ZapA; Region: ZapA; pfam05164 296591008668 Sulfite exporter TauE/SafE; Region: TauE; pfam01925 296591008669 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591008670 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591008671 The C-terminal substrate binding of LysR-type transcriptional regulator (CbbR) of RubisCO operon, which is involved in the carbon dioxide fixation, contains the type 2 periplasmic binding fold; Region: PBP2_CbbR_RubisCO_like; cd08419 296591008672 putative dimerization interface [polypeptide binding]; other site 296591008673 haloacid dehalogenase-like hydrolase family protein; Region: PLN02779 296591008674 Domain of unknown function (DUF2437); Region: DUF2437; pfam10370 296591008675 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 296591008676 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 296591008677 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 296591008678 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 296591008679 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 296591008680 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591008681 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 296591008682 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 296591008683 Cytidylate kinase-like family; Region: Cytidylate_kin2; pfam13189 296591008684 BON domain; Region: BON; pfam04972 296591008685 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 296591008686 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 296591008687 ligand binding site [chemical binding]; other site 296591008688 flexible hinge region; other site 296591008689 putative oxalyl-CoA decarboxylase; Validated; Region: PRK09259 296591008690 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 296591008691 PYR/PP interface [polypeptide binding]; other site 296591008692 dimer interface [polypeptide binding]; other site 296591008693 TPP binding site [chemical binding]; other site 296591008694 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 296591008695 Thiamine pyrophosphate (TPP) family, BZL_OCoD_HPCL subfamily, TPP-binding module; composed of proteins similar to benzaldehyde lyase (BZL), oxalyl-CoA decarboxylase (OCoD) and 2-hydroxyphytanoyl-CoA lyase (2-HPCL). Pseudomonas fluorescens biovar I BZL...; Region: TPP_BZL_OCoD_HPCL; cd02004 296591008696 TPP-binding site; other site 296591008697 dimer interface [polypeptide binding]; other site 296591008698 formyl-coenzyme A transferase; Provisional; Region: PRK05398 296591008699 CoA-transferase family III; Region: CoA_transf_3; pfam02515 296591008700 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 296591008701 PAS domain; Region: PAS_9; pfam13426 296591008702 putative active site [active] 296591008703 heme pocket [chemical binding]; other site 296591008704 formyl-coenzyme A transferase; Provisional; Region: PRK05398 296591008705 CoA-transferase family III; Region: CoA_transf_3; pfam02515 296591008706 Respiratory-chain NADH dehydrogenase 24 Kd subunit; Region: Complex1_24kDa; pfam01257 296591008707 TRX-like [2Fe-2S] Ferredoxin (Fd) family, NADH:ubiquinone oxidoreductase (Nuo) subunit E family, Tungsten-containing formate dehydrogenase (W-FDH) beta subunit; composed of proteins similar to the W-FDH beta subunit of Methylobacterium extorquens. W-FDH...; Region: TRX_Fd_NuoE_W_FDH_beta; cd03082 296591008708 putative dimer interface [polypeptide binding]; other site 296591008709 [2Fe-2S] cluster binding site [ion binding]; other site 296591008710 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 296591008711 SLBB domain; Region: SLBB; pfam10531 296591008712 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 296591008713 Uncharacterized anaerobic dehydrogenase [General function prediction only]; Region: COG3383 296591008714 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 296591008715 catalytic loop [active] 296591008716 iron binding site [ion binding]; other site 296591008717 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 296591008718 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_Formate-Dh-H; cd02753 296591008719 [4Fe-4S] binding site [ion binding]; other site 296591008720 molybdopterin cofactor binding site; other site 296591008721 Formate dehydrogenase H (Formate-Dh-H) catalyzes the reversible oxidation of formate to CO2 with the release of a proton and two electrons. It is a component of the anaerobic formate hydrogen lyase complex. The E. coli formate dehydrogenase H (Fdh-H) is...; Region: MopB_CT_Formate-Dh_H; cd02790 296591008722 molybdopterin cofactor binding site; other site 296591008723 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 296591008724 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 296591008725 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 296591008726 dimerization interface [polypeptide binding]; other site 296591008727 putative DNA binding site [nucleotide binding]; other site 296591008728 putative Zn2+ binding site [ion binding]; other site 296591008729 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 296591008730 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 296591008731 dimerization interface [polypeptide binding]; other site 296591008732 putative DNA binding site [nucleotide binding]; other site 296591008733 putative Zn2+ binding site [ion binding]; other site 296591008734 AsnC family; Region: AsnC_trans_reg; pfam01037 296591008735 putative DMT superfamily transporter inner membrane protein; Provisional; Region: PRK11272 296591008736 EamA-like transporter family; Region: EamA; pfam00892 296591008737 SWIB/MDM2 domain; Region: SWIB; pfam02201 296591008738 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 296591008739 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 296591008740 dimer interface [polypeptide binding]; other site 296591008741 conserved gate region; other site 296591008742 putative PBP binding loops; other site 296591008743 ABC-ATPase subunit interface; other site 296591008744 dipeptide transporter; Provisional; Region: PRK10913 296591008745 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 296591008746 dimer interface [polypeptide binding]; other site 296591008747 conserved gate region; other site 296591008748 putative PBP binding loops; other site 296591008749 ABC-ATPase subunit interface; other site 296591008750 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 296591008751 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 296591008752 Walker A/P-loop; other site 296591008753 ATP binding site [chemical binding]; other site 296591008754 Q-loop/lid; other site 296591008755 ABC transporter signature motif; other site 296591008756 Walker B; other site 296591008757 D-loop; other site 296591008758 H-loop/switch region; other site 296591008759 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 296591008760 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 296591008761 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 296591008762 Walker A/P-loop; other site 296591008763 ATP binding site [chemical binding]; other site 296591008764 Q-loop/lid; other site 296591008765 ABC transporter signature motif; other site 296591008766 Walker B; other site 296591008767 D-loop; other site 296591008768 H-loop/switch region; other site 296591008769 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 296591008770 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 296591008771 The substrate-binding component of an ABC-type dipeptide import system contains the type 2 periplasmic binding fold; Region: PBP2_DppA_like; cd08493 296591008772 peptide binding site [polypeptide binding]; other site 296591008773 thiamine pyrophosphate protein; Validated; Region: PRK08199 296591008774 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 296591008775 PYR/PP interface [polypeptide binding]; other site 296591008776 dimer interface [polypeptide binding]; other site 296591008777 TPP binding site [chemical binding]; other site 296591008778 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 296591008779 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 296591008780 TPP-binding site [chemical binding]; other site 296591008781 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 296591008782 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 296591008783 active site 296591008784 catalytic tetrad [active] 296591008785 putative secretion ATPase, PEP-CTERM locus subfamily; Region: pepcterm_ATPase; TIGR03015 296591008786 AAA ATPase domain; Region: AAA_16; pfam13191 296591008787 Putative peptidoglycan binding domain; Region: PG_binding_1; pfam01471 296591008788 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 296591008789 Major Facilitator Superfamily; Region: MFS_1; pfam07690 296591008790 putative substrate translocation pore; other site 296591008791 AraC-like ligand binding domain; Region: AraC_binding; pfam02311 296591008792 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 296591008793 Helix-turn-helix domain; Region: HTH_18; pfam12833 296591008794 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 296591008795 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 296591008796 HlyD family secretion protein; Region: HlyD_3; pfam13437 296591008797 multidrug efflux system subunit MdtB; Provisional; Region: PRK10503 296591008798 multidrug efflux system subunit MdtC; Provisional; Region: PRK10614 296591008799 Protein export membrane protein; Region: SecD_SecF; cl14618 296591008800 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 296591008801 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 296591008802 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 296591008803 dimer interface [polypeptide binding]; other site 296591008804 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591008805 catalytic residue [active] 296591008806 cystathionine gamma-synthase; Provisional; Region: PRK07811 296591008807 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 296591008808 homodimer interface [polypeptide binding]; other site 296591008809 substrate-cofactor binding pocket; other site 296591008810 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591008811 catalytic residue [active] 296591008812 CorA-like Mg2+ transporter protein; Region: CorA; pfam01544 296591008813 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 296591008814 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591008815 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 296591008816 putative dimerization interface [polypeptide binding]; other site 296591008817 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591008818 4-hydroxythreonine-4-phosphate dehydrogenase; Reviewed; Region: pdxA; PRK00232 296591008819 4-hydroxythreonine-4-phosphate dehydrogenase; Validated; Region: pdxA; PRK03743 296591008820 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 296591008821 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 2. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_2; cd03327 296591008822 putative active site pocket [active] 296591008823 putative metal binding site [ion binding]; other site 296591008824 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 296591008825 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 296591008826 inhibitor site; inhibition site 296591008827 active site 296591008828 dimer interface [polypeptide binding]; other site 296591008829 catalytic residue [active] 296591008830 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 296591008831 tripartite ATP-independent periplasmic transporter solute receptor, DctP family; Region: dctP; TIGR00787 296591008832 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 296591008833 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 296591008834 DctM-like transporters; Region: DctM; pfam06808 296591008835 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 296591008836 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 296591008837 Uncharacterized conserved protein [Function unknown]; Region: COG3391 296591008838 40-residue YVTN family beta-propeller repeat; Region: beta_rpt_yvtn; TIGR02276 296591008839 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 296591008840 Amidohydrolase; Region: Amidohydro_2; pfam04909 296591008841 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 296591008842 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 296591008843 NAD(P) binding site [chemical binding]; other site 296591008844 catalytic residues [active] 296591008845 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 296591008846 Transposase; Region: DEDD_Tnp_IS110; pfam01548 296591008847 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 296591008848 Protein of unknown function (DUF1330); Region: DUF1330; cl02288 296591008849 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 296591008850 Transposase; Region: HTH_Tnp_1; cl17663 296591008851 putative transposase OrfB; Reviewed; Region: PHA02517 296591008852 HTH-like domain; Region: HTH_21; pfam13276 296591008853 Integrase core domain; Region: rve; pfam00665 296591008854 Integrase core domain; Region: rve_3; pfam13683 296591008855 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591008856 phosphoglucosamine mutase; Provisional; Region: glmM; PRK10887 296591008857 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 296591008858 active site 296591008859 substrate binding site [chemical binding]; other site 296591008860 metal binding site [ion binding]; metal-binding site 296591008861 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 296591008862 dihydropteroate synthase; Region: DHPS; TIGR01496 296591008863 substrate binding pocket [chemical binding]; other site 296591008864 dimer interface [polypeptide binding]; other site 296591008865 inhibitor binding site; inhibition site 296591008866 FtsH Extracellular; Region: FtsH_ext; pfam06480 296591008867 ATP-dependent metalloprotease FtsH; Region: FtsH_fam; TIGR01241 296591008868 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 296591008869 Walker A motif; other site 296591008870 ATP binding site [chemical binding]; other site 296591008871 Walker B motif; other site 296591008872 arginine finger; other site 296591008873 Peptidase family M41; Region: Peptidase_M41; pfam01434 296591008874 23S rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: FtsJ; COG0293 296591008875 FtsJ-like methyltransferase; Region: FtsJ; cl17430 296591008876 Escherichia coli YhbY is associated with pre-50S ribosomal subunits, which implies a function in ribosome assembly; Region: CRS1_YhbY; smart01103 296591008877 Zn-dependent oligopeptidases [Amino acid transport and metabolism]; Region: Dcp; COG0339 296591008878 Peptidase family M3 dipeptidyl carboxypeptidase (DCP); Region: M3A_DCP; cd06456 296591008879 active site 296591008880 Zn binding site [ion binding]; other site 296591008881 Domain of unknown function (DUF4124); Region: DUF4124; pfam13511 296591008882 NrdH-redoxin (NrdH) family; NrdH is a small monomeric protein with a conserved redox active CXXC motif within a TRX fold, characterized by a glutaredoxin (GRX)-like sequence and TRX-like activity profile. In vitro, it displays protein disulfide reductase...; Region: NrdH; cd02976 296591008883 catalytic residues [active] 296591008884 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 296591008885 tetramer (dimer of dimers) interface [polypeptide binding]; other site 296591008886 active site 296591008887 dimer interface [polypeptide binding]; other site 296591008888 dihydroorotate dehydrogenase 2; Reviewed; Region: PRK05286 296591008889 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 296591008890 quinone interaction residues [chemical binding]; other site 296591008891 active site 296591008892 catalytic residues [active] 296591008893 FMN binding site [chemical binding]; other site 296591008894 substrate binding site [chemical binding]; other site 296591008895 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 296591008896 S-adenosylmethionine binding site [chemical binding]; other site 296591008897 aspartate kinase; Reviewed; Region: PRK06635 296591008898 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 296591008899 putative nucleotide binding site [chemical binding]; other site 296591008900 putative catalytic residues [active] 296591008901 putative Mg ion binding site [ion binding]; other site 296591008902 putative aspartate binding site [chemical binding]; other site 296591008903 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 296591008904 putative allosteric regulatory site; other site 296591008905 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 296591008906 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 296591008907 tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]; Region: MesJ; COG0037 296591008908 Ligand Binding Site [chemical binding]; other site 296591008909 TilS substrate binding domain; Region: TilS; pfam09179 296591008910 Phytanoyl-CoA dioxygenase (PhyH); Region: PhyH; pfam05721 296591008911 acetyl-CoA carboxylase carboxyltransferase subunit alpha; Validated; Region: PRK05724 296591008912 acetyl-CoA carboxylase carboxyltransferase alpha subunit; Provisional; Region: accA; CHL00198 296591008913 endonuclease III; includes endonuclease III (DNA-(apurinic or apyrimidinic site) lyase), alkylbase DNA glycosidases (Alka-family) and other DNA glycosidases; Region: ENDO3c; cd00056 296591008914 endonuclease III; Region: ENDO3c; smart00478 296591008915 minor groove reading motif; other site 296591008916 helix-hairpin-helix signature motif; other site 296591008917 substrate binding pocket [chemical binding]; other site 296591008918 active site 296591008919 cysteinyl-tRNA synthetase; Validated; Region: cysS; PRK00260 296591008920 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 296591008921 active site 296591008922 HIGH motif; other site 296591008923 catalytic core domain of cysteinyl tRNA synthetase; Region: CysRS_core; cd00672 296591008924 KMSKS motif; other site 296591008925 Anticodon-binding domain of cysteinyl tRNA synthetases; Region: Anticodon_Ia_Cys; cd07963 296591008926 tRNA binding surface [nucleotide binding]; other site 296591008927 anticodon binding site; other site 296591008928 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 296591008929 binding surface 296591008930 TPR motif; other site 296591008931 TPR repeat; Region: TPR_11; pfam13414 296591008932 cyclophilin: cyclophilin-type peptidylprolyl cis- trans isomerases. This family contains eukaryotic, bacterial and archeal proteins which exhibit a peptidylprolyl cis- trans isomerases activity (PPIase, Rotamase) and in addition bind the...; Region: cyclophilin; cl00197 296591008933 active site 296591008934 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 296591008935 substrate binding site [chemical binding]; other site 296591008936 Calcineurin-like phosphoesterase; Region: Metallophos; pfam00149 296591008937 Escherichia coli YbbF/LpxH and related proteins, metallophosphatase domain; Region: MPP_YbbF-LpxH; cd07398 296591008938 putative active site [active] 296591008939 putative metal binding site [ion binding]; other site 296591008940 Phosphoenolpyruvate:glucose-phosphotransferase regulator; Region: MtfA; pfam06167 296591008941 Domain of Unknown Function (DUF349); Region: DUF349; pfam03993 296591008942 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 296591008943 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 296591008944 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 296591008945 Domain of Unknown Function (DUF748); Region: DUF748; pfam05359 296591008946 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 296591008947 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 296591008948 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 296591008949 N-acetyl-D-glucosamine binding site [chemical binding]; other site 296591008950 catalytic residue [active] 296591008951 serine hydroxymethyltransferase; Reviewed; Region: glyA; PRK00011 296591008952 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 296591008953 dimer interface [polypeptide binding]; other site 296591008954 active site 296591008955 glycine-pyridoxal phosphate binding site [chemical binding]; other site 296591008956 folate binding site [chemical binding]; other site 296591008957 transcriptional regulator NrdR; Validated; Region: nrdR; PRK00464 296591008958 ATP cone domain; Region: ATP-cone; pfam03477 296591008959 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 296591008960 Type II transport protein GspH; Region: GspH; pfam12019 296591008961 Tfp pilus assembly protein FimT [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimT; COG4970 296591008962 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 296591008963 Type II transport protein GspH; Region: GspH; pfam12019 296591008964 von Willebrand factor type A domain; Region: VWA_2; pfam13519 296591008965 Tfp pilus assembly protein, tip-associated adhesin PilY1 [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilY1; COG3419 296591008966 Neisseria PilC beta-propeller domain; Region: Neisseria_PilC; pfam05567 296591008967 type IV pilus modification protein PilV; Region: type_IV_pilV; TIGR02523 296591008968 Tfp pilus assembly protein PilE [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilE; COG4968 296591008969 prepilin-type N-terminal cleavage/methylation domain; Region: IV_pilin_GFxxxE; TIGR02532 296591008970 riboflavin biosynthesis protein RibD; Region: eubact_ribD; TIGR00326 296591008971 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 296591008972 catalytic motif [active] 296591008973 Zn binding site [ion binding]; other site 296591008974 RibD C-terminal domain; Region: RibD_C; cl17279 296591008975 riboflavin synthase subunit alpha; Provisional; Region: PRK09289 296591008976 Lumazine binding domain; Region: Lum_binding; pfam00677 296591008977 Lumazine binding domain; Region: Lum_binding; pfam00677 296591008978 bifunctional 3,4-dihydroxy-2-butanone 4-phosphate synthase/GTP cyclohydrolase II-like protein; Provisional; Region: PRK14019 296591008979 3,4-dihydroxy-2-butanone 4-phosphate synthase; Region: DHBP_synthase; pfam00926 296591008980 GTP cyclohydrolase II; Region: GTP_cyclohydro2; pfam00925 296591008981 dimerization interface [polypeptide binding]; other site 296591008982 active site 296591008983 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 296591008984 homopentamer interface [polypeptide binding]; other site 296591008985 active site 296591008986 transcription antitermination protein NusB; Reviewed; Region: nusB; PRK00202 296591008987 putative RNA binding site [nucleotide binding]; other site 296591008988 aminotransferase; Validated; Region: PRK07337 296591008989 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 296591008990 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591008991 homodimer interface [polypeptide binding]; other site 296591008992 catalytic residue [active] 296591008993 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 296591008994 active site 296591008995 TolQ protein; Region: tolQ; TIGR02796 296591008996 TolR protein; Region: tolR; TIGR02801 296591008997 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 296591008998 TolA protein; Region: tolA_full; TIGR02794 296591008999 TonB C terminal; Region: TonB_2; pfam13103 296591009000 DNA polymerase III subunit alpha; Validated; Region: dnaE; PRK05673 296591009001 Polymerase and Histidinol Phosphatase domain of alpha-subunit of bacterial polymerase III DnaE1; Region: PHP_PolIIIA_DnaE1; cd07433 296591009002 putative active site [active] 296591009003 putative PHP Thumb interface [polypeptide binding]; other site 296591009004 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 296591009005 generic binding surface II; other site 296591009006 generic binding surface I; other site 296591009007 rhodanese superfamily protein; Provisional; Region: PRK05320 296591009008 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 296591009009 active site residue [active] 296591009010 Protein of unknown function, DUF599; Region: DUF599; pfam04654 296591009011 Pirin-related protein [General function prediction only]; Region: COG1741 296591009012 Pirin; Region: Pirin; pfam02678 296591009013 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 296591009014 Predicted redox protein, regulator of disulfide bond formation [Posttranslational modification, protein turnover, chaperones]; Region: COG1765 296591009015 Multimeric flavodoxin WrbA [General function prediction only]; Region: WrbA; COG0655 296591009016 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 296591009017 Predicted membrane protein [Function unknown]; Region: COG2259 296591009018 Pirin-related protein [General function prediction only]; Region: COG1741 296591009019 Pirin; Region: Pirin; pfam02678 296591009020 putative DNA-binding transcriptional regulator; Provisional; Region: PRK11074 296591009021 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591009022 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 296591009023 dimerization interface [polypeptide binding]; other site 296591009024 Predicted NAD/FAD-dependent oxidoreductase [General function prediction only]; Region: COG3380 296591009025 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 296591009026 Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]; Region: GlnS; COG0008 296591009027 glutamyl-queuosine tRNA(Asp) synthetase; Region: queuosine_YadB; TIGR03838 296591009028 active site 296591009029 HIGH motif; other site 296591009030 nucleotide binding site [chemical binding]; other site 296591009031 active site 296591009032 KMSKS motif; other site 296591009033 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 296591009034 S-adenosylmethionine binding site [chemical binding]; other site 296591009035 pseudouridine synthase, RluA family; Region: rluA_subfam; TIGR00005 296591009036 Pseudouridine synthase, a subgroup of the RluA family; Region: PSRA_1; cd02558 296591009037 probable active site [active] 296591009038 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 296591009039 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 296591009040 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 296591009041 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 296591009042 catalytic residues [active] 296591009043 dimethylhistidine N-methyltransferase; Region: egtD_ergothio; TIGR03438 296591009044 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 296591009045 Uncharacterized conserved protein (DUF2260); Region: DUF2260; pfam10017 296591009046 alanyl-tRNA synthetase; Reviewed; Region: alaS; PRK00252 296591009047 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 296591009048 motif 1; other site 296591009049 active site 296591009050 motif 2; other site 296591009051 motif 3; other site 296591009052 Threonyl and Alanyl tRNA synthetase second additional domain; Region: tRNA_SAD; smart00863 296591009053 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 296591009054 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591009055 DNA-binding site [nucleotide binding]; DNA binding site 296591009056 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 296591009057 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591009058 homodimer interface [polypeptide binding]; other site 296591009059 catalytic residue [active] 296591009060 4-aminobutyrate aminotransferase; Validated; Region: PRK08088 296591009061 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 296591009062 inhibitor-cofactor binding pocket; inhibition site 296591009063 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591009064 catalytic residue [active] 296591009065 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 296591009066 ATP-binding cassette domain of the polyamine transporter; Region: ABC_PotA_N; cd03300 296591009067 Walker A/P-loop; other site 296591009068 ATP binding site [chemical binding]; other site 296591009069 Q-loop/lid; other site 296591009070 ABC transporter signature motif; other site 296591009071 Walker B; other site 296591009072 D-loop; other site 296591009073 H-loop/switch region; other site 296591009074 TOBE domain; Region: TOBE_2; pfam08402 296591009075 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 296591009076 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 296591009077 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 296591009078 dimer interface [polypeptide binding]; other site 296591009079 conserved gate region; other site 296591009080 putative PBP binding loops; other site 296591009081 ABC-ATPase subunit interface; other site 296591009082 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 296591009083 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 296591009084 dimer interface [polypeptide binding]; other site 296591009085 conserved gate region; other site 296591009086 putative PBP binding loops; other site 296591009087 ABC-ATPase subunit interface; other site 296591009088 succinic semialdehyde dehydrogenase; Region: PLN02278 296591009089 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 296591009090 tetramerization interface [polypeptide binding]; other site 296591009091 NAD(P) binding site [chemical binding]; other site 296591009092 catalytic residues [active] 296591009093 Uncharacterized subgroup of the CYTH-like superfamily having an associated CHAD domain; Region: CYTH-like_Pase_CHAD; cd07756 296591009094 putative active site [active] 296591009095 putative triphosphate binding site [ion binding]; other site 296591009096 putative metal binding residues [ion binding]; other site 296591009097 The CHAD domain is an alpha-helical domain functionally associated with some members of the adenylate cyclase family; Region: CHAD; smart00880 296591009098 Cupin domain; Region: Cupin_2; pfam07883 296591009099 Uncharacterized conserved protein [Function unknown]; Region: COG2128 296591009100 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 296591009101 RNA polymerase sigma-70 factor, TIGR02957 family; Region: SigX4 296591009102 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 296591009103 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 296591009104 Uncharacterized conserved protein [Function unknown]; Region: COG2128 296591009105 NADH(P)-binding; Region: NAD_binding_10; pfam13460 296591009106 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591009107 NAD(P) binding site [chemical binding]; other site 296591009108 active site 296591009109 This domain is the catalytic domain of ribonuclease II; Region: RNB; smart00955 296591009110 RNB domain; Region: RNB; pfam00773 296591009111 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 296591009112 RNA binding site [nucleotide binding]; other site 296591009113 Uncharacterized conserved protein [Function unknown]; Region: COG3339 296591009114 EVE domain; Region: EVE; cl00728 296591009115 hypothetical protein; Provisional; Region: PRK12378 296591009116 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 296591009117 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 296591009118 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 296591009119 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591009120 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591009121 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 296591009122 putative effector binding pocket; other site 296591009123 dimerization interface [polypeptide binding]; other site 296591009124 Predicted dinucleotide-binding enzymes [General function prediction only]; Region: COG2085 296591009125 NADP oxidoreductase coenzyme F420-dependent; Region: F420_oxidored; pfam03807 296591009126 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 296591009127 NMT1-like family; Region: NMT1_2; pfam13379 296591009128 substrate binding pocket [chemical binding]; other site 296591009129 membrane-bound complex binding site; other site 296591009130 SCO (an acronym for Synthesis of Cytochrome c Oxidase) family; composed of proteins similar to Sco1, a membrane-anchored protein possessing a soluble domain with a TRX fold. Members of this family are required for the proper assembly of cytochrome c...; Region: SCO; cd02968 296591009131 Uncharacterized protein SCO1/SenC/PrrC, involved in biogenesis of respiratory and photosynthetic systems [General function prediction only]; Region: COG1999 296591009132 Cu(I) binding site [ion binding]; other site 296591009133 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 296591009134 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 296591009135 dimer interface [polypeptide binding]; other site 296591009136 conserved gate region; other site 296591009137 putative PBP binding loops; other site 296591009138 ABC-ATPase subunit interface; other site 296591009139 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 296591009140 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 296591009141 Walker A/P-loop; other site 296591009142 ATP binding site [chemical binding]; other site 296591009143 Q-loop/lid; other site 296591009144 ABC transporter signature motif; other site 296591009145 Walker B; other site 296591009146 D-loop; other site 296591009147 H-loop/switch region; other site 296591009148 Predicted sulfurtransferase [General function prediction only]; Region: COG1054 296591009149 Member of the Rhodanese Homology Domain superfamily. This CD includes Escherichia coli YceA, Bacillus subtilis YbfQ, and similar uncharacterized proteins; Region: RHOD_YceA; cd01518 296591009150 active site residue [active] 296591009151 GST_N family, Omega-like subfamily; composed of uncharacterized proteins with similarity to class Omega 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_Omega_like; cd03060 296591009152 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 296591009153 putative GSH binding site (G-site) [chemical binding]; other site 296591009154 active site cysteine [active] 296591009155 putative C-terminal domain interface [polypeptide binding]; other site 296591009156 putative dimer interface [polypeptide binding]; other site 296591009157 C-terminal, alpha helical domain of an unknown subfamily 5 of Glutathione S-transferases; Region: GST_C_5; cd03196 296591009158 putative N-terminal domain interface [polypeptide binding]; other site 296591009159 putative dimer interface [polypeptide binding]; other site 296591009160 putative substrate binding pocket (H-site) [chemical binding]; other site 296591009161 exonuclease I; Provisional; Region: sbcB; PRK11779 296591009162 N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins; Region: ExoI_N; cd06138 296591009163 active site 296591009164 catalytic site [active] 296591009165 substrate binding site [chemical binding]; other site 296591009166 Exonuclease C-terminal; Region: Exonuc_X-T_C; pfam08411 296591009167 ATP-dependent Clp protease ATP-binding subunit clpA; Region: ClpA; TIGR02639 296591009168 Clp amino terminal domain; Region: Clp_N; pfam02861 296591009169 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 296591009170 Walker A motif; other site 296591009171 ATP binding site [chemical binding]; other site 296591009172 Walker B motif; other site 296591009173 arginine finger; other site 296591009174 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 296591009175 Walker A motif; other site 296591009176 ATP binding site [chemical binding]; other site 296591009177 Walker B motif; other site 296591009178 C-terminal, D2-small domain, of ClpB protein; Region: ClpB_D2-small; pfam10431 296591009179 Uncharacterized conserved protein [Function unknown]; Region: COG2127 296591009180 isocitrate dehydrogenase; Validated; Region: PRK07362 296591009181 isocitrate dehydrogenase; Reviewed; Region: PRK07006 296591009182 Uncharacterized ACR, COG1430; Region: DUF192; pfam02643 296591009183 superoxide dismutase; Provisional; Region: PRK10543 296591009184 Iron/manganese superoxide dismutases, alpha-hairpin domain; Region: Sod_Fe_N; pfam00081 296591009185 Iron/manganese superoxide dismutases, C-terminal domain; Region: Sod_Fe_C; pfam02777 296591009186 exodeoxyribonuclease VII large subunit; Reviewed; Region: xseA; PRK00286 296591009187 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 296591009188 generic binding surface II; other site 296591009189 generic binding surface I; other site 296591009190 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 296591009191 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 296591009192 Biopolymer transport protein ExbD/TolR; Region: ExbD; pfam02472 296591009193 tetraacyldisaccharide 4'-kinase; Reviewed; Region: lpxK; PRK00652 296591009194 Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]; Region: LpxK; COG1663 296591009195 Uncharacterized conserved protein [Function unknown]; Region: COG2835 296591009196 3-deoxy-manno-octulosonate cytidylyltransferase; Provisional; Region: PRK05450 296591009197 CMP-KDO synthetase catalyzes the activation of KDO which is an essential component of the lipopolysaccharide; Region: CMP-KDO-Synthetase; cd02517 296591009198 Ligand binding site; other site 296591009199 oligomer interface; other site 296591009200 adenylate kinase; Reviewed; Region: adk; PRK00279 296591009201 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 296591009202 AMP-binding site [chemical binding]; other site 296591009203 ATP-AMP (Ap5A)-binding site [chemical binding]; other site 296591009204 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 296591009205 active site 296591009206 homotetramer interface [polypeptide binding]; other site 296591009207 homodimer interface [polypeptide binding]; other site 296591009208 LexA repressor; Validated; Region: PRK00215 296591009209 LexA DNA binding domain; Region: LexA_DNA_bind; pfam01726 296591009210 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 296591009211 Catalytic site [active] 296591009212 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 296591009213 Putative D-3-Phosphoglycerate Dehydrogenases; Region: PGDH_like_1; cd12169 296591009214 dimerization interface [polypeptide binding]; other site 296591009215 NAD binding site [chemical binding]; other site 296591009216 ligand binding site [chemical binding]; other site 296591009217 catalytic site [active] 296591009218 3-hydroxy-acyl-CoA dehydrogenase; Validated; Region: PRK08268 296591009219 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 296591009220 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 296591009221 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 296591009222 enoyl-CoA hydratase; Provisional; Region: PRK07511 296591009223 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 296591009224 substrate binding site [chemical binding]; other site 296591009225 oxyanion hole (OAH) forming residues; other site 296591009226 trimer interface [polypeptide binding]; other site 296591009227 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 296591009228 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 296591009229 ligand binding site [chemical binding]; other site 296591009230 flexible hinge region; other site 296591009231 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; cl17320 296591009232 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 296591009233 Phosphotransferase enzyme family; Region: APH; pfam01636 296591009234 putative active site [active] 296591009235 putative substrate binding site [chemical binding]; other site 296591009236 ATP binding site [chemical binding]; other site 296591009237 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 296591009238 Acyl-CoA dehydrogenases similar to fadE2; Region: ACAD_FadE2; cd01155 296591009239 FAD binding site [chemical binding]; other site 296591009240 substrate binding site [chemical binding]; other site 296591009241 catalytic base [active] 296591009242 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 296591009243 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 296591009244 C-terminal domain interface [polypeptide binding]; other site 296591009245 GSH binding site (G-site) [chemical binding]; other site 296591009246 dimer interface [polypeptide binding]; other site 296591009247 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 296591009248 N-terminal domain interface [polypeptide binding]; other site 296591009249 putative dimer interface [polypeptide binding]; other site 296591009250 active site 296591009251 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 296591009252 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 296591009253 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 296591009254 Integrase [DNA replication, recombination, and repair]; Region: XerC; COG0582 296591009255 active site 296591009256 DNA binding site [nucleotide binding] 296591009257 Int/Topo IB signature motif; other site 296591009258 CHC2 zinc finger; Region: zf-CHC2; cl17510 296591009259 AAA domain; Region: AAA_25; pfam13481 296591009260 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 296591009261 Walker A motif; other site 296591009262 ATP binding site [chemical binding]; other site 296591009263 Walker B motif; other site 296591009264 Phage capsid family; Region: Phage_capsid; pfam05065 296591009265 Domain of unknown function (DUF4415); Region: DUF4415; cl01401 296591009266 Protein of unknown function, DUF488; Region: DUF488; cl01246 296591009267 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 296591009268 benzoate-CoA ligase family; Region: benz_CoA_lig; TIGR02262 296591009269 Benzoate CoA ligase (BCL) and 4-Hydroxybenzoate-Coenzyme A Ligase (4-HBA-CoA ligase); Region: BCL_4HBCL; cd05959 296591009270 dimer interface [polypeptide binding]; other site 296591009271 acyl-activating enzyme (AAE) consensus motif; other site 296591009272 putative active site [active] 296591009273 putative AMP binding site [chemical binding]; other site 296591009274 putative CoA binding site [chemical binding]; other site 296591009275 chemical substrate binding site [chemical binding]; other site 296591009276 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 296591009277 Type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene; Region: PBP1_alkylbenzenes_like; cd06360 296591009278 putative ligand binding site [chemical binding]; other site 296591009279 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 296591009280 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 296591009281 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 296591009282 TM-ABC transporter signature motif; other site 296591009283 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 296591009284 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 296591009285 TM-ABC transporter signature motif; other site 296591009286 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 296591009287 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 296591009288 Walker A/P-loop; other site 296591009289 ATP binding site [chemical binding]; other site 296591009290 Q-loop/lid; other site 296591009291 ABC transporter signature motif; other site 296591009292 Walker B; other site 296591009293 D-loop; other site 296591009294 H-loop/switch region; other site 296591009295 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 296591009296 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 296591009297 Walker A/P-loop; other site 296591009298 ATP binding site [chemical binding]; other site 296591009299 Q-loop/lid; other site 296591009300 ABC transporter signature motif; other site 296591009301 Walker B; other site 296591009302 D-loop; other site 296591009303 H-loop/switch region; other site 296591009304 Cache domain; Region: Cache_1; pfam02743 296591009305 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 296591009306 PAS fold; Region: PAS_3; pfam08447 296591009307 putative active site [active] 296591009308 heme pocket [chemical binding]; other site 296591009309 PAS fold; Region: PAS_3; pfam08447 296591009310 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 296591009311 putative active site [active] 296591009312 heme pocket [chemical binding]; other site 296591009313 PAS domain S-box; Region: sensory_box; TIGR00229 296591009314 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 296591009315 putative active site [active] 296591009316 heme pocket [chemical binding]; other site 296591009317 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 296591009318 GAF domain; Region: GAF_3; pfam13492 296591009319 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 296591009320 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 296591009321 putative active site [active] 296591009322 heme pocket [chemical binding]; other site 296591009323 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 296591009324 dimer interface [polypeptide binding]; other site 296591009325 phosphorylation site [posttranslational modification] 296591009326 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 296591009327 ATP binding site [chemical binding]; other site 296591009328 Mg2+ binding site [ion binding]; other site 296591009329 G-X-G motif; other site 296591009330 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 296591009331 Bacterial transcriptional regulator; Region: IclR; pfam01614 296591009332 4-hydroxybenzoate 3-monooxygenase; Validated; Region: PRK08243 296591009333 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 296591009334 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 296591009335 CoA-transferase family III; Region: CoA_transf_3; pfam02515 296591009336 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 296591009337 Radical SAM N-terminal; Region: Radical_SAM_N; pfam08497 296591009338 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 296591009339 Domain of unknown function (DUF3362); Region: DUF3362; pfam11842 296591009340 fumarylacetoacetase; Region: fum_ac_acetase; TIGR01266 296591009341 Domain of unknown function (DUF1969); Region: DUF1969; pfam09298 296591009342 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 296591009343 homogentisate 1,2-dioxygenase; Provisional; Region: PRK05341 296591009344 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 296591009345 MarR family; Region: MarR_2; pfam12802 296591009346 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591009347 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 296591009348 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 296591009349 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 296591009350 CHRD domain; Region: CHRD; pfam07452 296591009351 Ku-core domain, Ku-like subfamily; composed of prokaryotic homologs of the eukaryotic DNA binding protein Ku. The alignment includes the core domain shared by the prokaryotic YkoV-like proteins and the eukaryotic Ku70 and Ku80. The prokaryotic Ku...; Region: KU_like; cd00789 296591009352 Ku protein, prokaryotic; Region: Ku_bact; TIGR02772 296591009353 putative DNA binding site [nucleotide binding]; other site 296591009354 putative homodimer interface [polypeptide binding]; other site 296591009355 ATP-dependent DNA ligase; Reviewed; Region: ligD; PRK05972 296591009356 DNA ligase D, 3'-phosphoesterase domain; Region: LigD_PE_dom; TIGR02777 296591009357 Adenylation domain of Mycobacterium tuberculosis LigD and LigC-like ATP-dependent DNA ligases; Region: Adenylation_DNA_ligase_LigD_LigC; cd07906 296591009358 active site 296591009359 DNA binding site [nucleotide binding] 296591009360 The Oligonucleotide/oligosaccharide binding (OB)-fold domain of ATP-dependent DNA ligase LigD is a DNA-binding module that is part of the catalytic core unit; Region: OBF_DNA_ligase_LigD; cd07971 296591009361 DNA binding site [nucleotide binding] 296591009362 PaeLigD_Pol_like: Polymerase (Pol) domain of bacterial LigD proteins similar to Pseudomonas aeruginosa (Pae) LigD. The LigD Pol domain belongs to the archaeal/eukaryal primase (AEP) superfamily. In prokaryotes, LigD along with Ku is required for...; Region: PaeLigD_Pol_like; cd04862 296591009363 nucleotide binding site [chemical binding]; other site 296591009364 GST_N family, Class Sigma_like; composed of GSTs belonging to class Sigma and similar proteins, including GSTs from class Mu, Pi and Alpha. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of...; Region: GST_N_Sigma_like; cd03039 296591009365 glutathione s-transferase; Provisional; Region: PTZ00057 296591009366 GSH binding site (G-site) [chemical binding]; other site 296591009367 C-terminal domain interface [polypeptide binding]; other site 296591009368 dimer interface [polypeptide binding]; other site 296591009369 C-terminal, alpha helical domain of Class Sigma-like Glutathione S-transferases; Region: GST_C_Sigma_like; cd03192 296591009370 N-terminal domain interface [polypeptide binding]; other site 296591009371 dimer interface [polypeptide binding]; other site 296591009372 substrate binding pocket (H-site) [chemical binding]; other site 296591009373 Predicted dithiol-disulfide isomerase involved in polyketide biosynthesis [Secondary metabolites biosynthesis, transport, and catabolism]; Region: FrnE; COG2761 296591009374 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 296591009375 catalytic residues [active] 296591009376 Tripartite tricarboxylate transporter TctA family; Region: TctA; pfam01970 296591009377 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 296591009378 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591009379 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 296591009380 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 296591009381 active site 296591009382 acetyl-CoA acetyltransferase; Validated; Region: PRK08242 296591009383 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 296591009384 dimer interface [polypeptide binding]; other site 296591009385 active site 296591009386 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 296591009387 multifunctional fatty acid oxidation complex subunit alpha; Reviewed; Region: fadJ; PRK11154 296591009388 substrate binding site [chemical binding]; other site 296591009389 oxyanion hole (OAH) forming residues; other site 296591009390 trimer interface [polypeptide binding]; other site 296591009391 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 296591009392 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 296591009393 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 296591009394 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 296591009395 sulfite oxidase; Provisional; Region: PLN00177 296591009396 Subgroup of sulfite oxidase (SO) family molybdopterin binding domains that contains conserved dimerization domain. This molybdopterin cofactor (Moco) binding domain is found in a variety of oxidoreductases, main members of this family are nitrate...; Region: SO_family_Moco_dimer; cd02110 296591009397 Moco binding site; other site 296591009398 metal coordination site [ion binding]; other site 296591009399 dimerization interface [polypeptide binding]; other site 296591009400 MarR family; Region: MarR_2; pfam12802 296591009401 Transcriptional regulators [Transcription]; Region: MarR; COG1846 296591009402 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 296591009403 Coenzyme A binding pocket [chemical binding]; other site 296591009404 Bacterial NAD-glutamate dehydrogenase; Region: Bac_GDH; pfam05088 296591009405 Glutamate/Leucine/Phenylalanine/Valine dehydrogenase; Region: ELFV_dehydrog; smart00839 296591009406 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591009407 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 296591009408 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 296591009409 NAD(P) binding site [chemical binding]; other site 296591009410 enoyl-CoA hydratase; Provisional; Region: PRK06127 296591009411 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 296591009412 substrate binding site [chemical binding]; other site 296591009413 oxyanion hole (OAH) forming residues; other site 296591009414 trimer interface [polypeptide binding]; other site 296591009415 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 296591009416 CoA-transferase family III; Region: CoA_transf_3; pfam02515 296591009417 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 296591009418 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591009419 DNA-binding site [nucleotide binding]; DNA binding site 296591009420 FCD domain; Region: FCD; pfam07729 296591009421 Chromate transporter; Region: Chromate_transp; pfam02417 296591009422 Chromate transporter; Region: Chromate_transp; pfam02417 296591009423 23S rRNA (guanosine-2'-O-)-methyltransferase; Provisional; Region: PRK11181 296591009424 RNA 2'-O ribose methyltransferase substrate binding; Region: SpoU_sub_bind; smart00967 296591009425 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 296591009426 cell division ATP-binding protein FtsE; Region: FtsE; TIGR02673 296591009427 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 296591009428 Walker A/P-loop; other site 296591009429 ATP binding site [chemical binding]; other site 296591009430 Q-loop/lid; other site 296591009431 ABC transporter signature motif; other site 296591009432 Walker B; other site 296591009433 D-loop; other site 296591009434 H-loop/switch region; other site 296591009435 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 296591009436 active site 296591009437 catalytic triad [active] 296591009438 oxyanion hole [active] 296591009439 switch loop; other site 296591009440 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 296591009441 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 296591009442 active site residue [active] 296591009443 DnaB-like helicase N terminal domain; Region: DnaB; pfam00772 296591009444 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 296591009445 Walker A motif; other site 296591009446 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 296591009447 replicative DNA helicase; Region: DnaB; TIGR00665 296591009448 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 296591009449 ATP binding site [chemical binding]; other site 296591009450 Walker B motif; other site 296591009451 DNA binding loops [nucleotide binding] 296591009452 50S ribosomal protein L9; Reviewed; Region: rplI; PRK00137 296591009453 Ribosomal protein L9, N-terminal domain; Region: Ribosomal_L9_N; pfam01281 296591009454 Ribosomal protein L9, C-terminal domain; Region: Ribosomal_L9_C; pfam03948 296591009455 30S ribosomal protein S18; Reviewed; Region: rpsR; PRK00391 296591009456 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 296591009457 30S ribosomal protein S6; Reviewed; Region: rpsF; PRK00453 296591009458 Integrase core domain; Region: rve; pfam00665 296591009459 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 296591009460 probable sodium:solute symporter, VC_2705 subfamily; Region: Na_symport_lg; TIGR03648 296591009461 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 296591009462 phosphoenolpyruvate synthase; Validated; Region: PRK06464 296591009463 Pyruvate phosphate dikinase, PEP/pyruvate binding domain; Region: PPDK_N; pfam01326 296591009464 PEP-utilising enzyme, mobile domain; Region: PEP-utilizers; pfam00391 296591009465 PEP-utilising enzyme, TIM barrel domain; Region: PEP-utilizers_C; pfam02896 296591009466 PEP synthetase regulatory protein; Provisional; Region: PRK05339 296591009467 peroxiredoxin; Region: AhpC; TIGR03137 296591009468 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 296591009469 dimer interface [polypeptide binding]; other site 296591009470 decamer (pentamer of dimers) interface [polypeptide binding]; other site 296591009471 catalytic triad [active] 296591009472 peroxidatic and resolving cysteines [active] 296591009473 alkyl hydroperoxide reductase subunit F; Provisional; Region: PRK15317 296591009474 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 296591009475 catalytic residue [active] 296591009476 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 296591009477 catalytic residues [active] 296591009478 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 296591009479 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 296591009480 Bacterioferritin (cytochrome b1) [Inorganic ion transport and metabolism]; Region: Bfr; COG2193 296591009481 Bacterioferritin, ferritin-like diiron-binding domain; Region: Bacterioferritin; cd00907 296591009482 heme binding site [chemical binding]; other site 296591009483 ferroxidase pore; other site 296591009484 ferroxidase diiron center [ion binding]; other site 296591009485 Outer membrane receptor for monomeric catechols [Inorganic ion transport and metabolism]; Region: Fiu; COG4774 296591009486 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 296591009487 N-terminal plug; other site 296591009488 ligand-binding site [chemical binding]; other site 296591009489 Fe(II)-dependent oxygenase superfamily protein; Provisional; Region: PRK05467 296591009490 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 296591009491 FMN-dependent dehydrogenase; Region: FMN_dh; pfam01070 296591009492 active site 296591009493 substrate binding site [chemical binding]; other site 296591009494 FMN binding site [chemical binding]; other site 296591009495 putative catalytic residues [active] 296591009496 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 296591009497 Periplasmic protein TonB, links inner and outer membranes [Cell envelope biogenesis, outer membrane]; Region: TonB; COG0810 296591009498 Gram-negative bacterial tonB protein; Region: TonB; pfam03544 296591009499 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 296591009500 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 296591009501 TolR protein; Region: tolR; TIGR02801 296591009502 Hemin uptake protein hemP; Region: hemP; pfam10636 296591009503 Domain of unknown function (DUF336); Region: DUF336; cl01249 296591009504 Integral membrane protein, interacts with FtsH [General function prediction only]; Region: COG0670 296591009505 YccA-like proteins; Region: YccA_like; cd10433 296591009506 23S rRNA m(5)U1939 methyltransferase; Reviewed; Region: rumA; PRK13168 296591009507 TRAM domain; Region: TRAM; cl01282 296591009508 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 296591009509 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 296591009510 active site 296591009511 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 296591009512 Peptidase family M23; Region: Peptidase_M23; pfam01551 296591009513 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 296591009514 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 296591009515 S-adenosylmethionine binding site [chemical binding]; other site 296591009516 5'(3')-nucleotidase/polyphosphatase; Provisional; Region: surE; PRK00346 296591009517 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 296591009518 Quinone oxidoreductase (QOR); Region: QOR1; cd08241 296591009519 NAD(P) binding site [chemical binding]; other site 296591009520 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 296591009521 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 296591009522 active site 296591009523 phosphorylation site [posttranslational modification] 296591009524 intermolecular recognition site; other site 296591009525 dimerization interface [polypeptide binding]; other site 296591009526 periplasmic folding chaperone; Provisional; Region: PRK10788 296591009527 SurA N-terminal domain; Region: SurA_N_3; cl07813 296591009528 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 296591009529 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 296591009530 IHF dimer interface [polypeptide binding]; other site 296591009531 IHF - DNA interface [nucleotide binding]; other site 296591009532 Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]; Region: LeuB; COG0473 296591009533 tartrate dehydrogenase; Region: TTC; TIGR02089 296591009534 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 296591009535 transcriptional activator TtdR; Provisional; Region: PRK09801 296591009536 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591009537 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 296591009538 putative effector binding pocket; other site 296591009539 putative dimerization interface [polypeptide binding]; other site 296591009540 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 296591009541 EamA-like transporter family; Region: EamA; pfam00892 296591009542 CDP-alcohol phosphatidyltransferase; Region: CDP-OH_P_transf; cl00453 296591009543 excinuclease ABC subunit C; Validated; Region: uvrC; PRK00558 296591009544 Catalytic GIY-YIG domain of nucleotide excision repair endonucleases UvrC, Cho, and similar proteins; Region: GIY-YIG_UvrC_Cho; cd10434 296591009545 GIY-YIG motif/motif A; other site 296591009546 active site 296591009547 catalytic site [active] 296591009548 putative DNA binding site [nucleotide binding]; other site 296591009549 metal binding site [ion binding]; metal-binding site 296591009550 UvrB/uvrC motif; Region: UVR; pfam02151 296591009551 UvrC Helix-hairpin-helix N-terminal; Region: UvrC_HhH_N; pfam08459 296591009552 Uncharacterized conserved protein (DUF2235); Region: DUF2235; pfam09994 296591009553 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4394 296591009554 Uncharacterized protein conserved in bacteria (DUF2331); Region: DUF2331; pfam10093 296591009555 elongation factor P; Validated; Region: PRK00529 296591009556 Elongation factor P (EF-P) KOW-like domain; Region: EFP_N; pfam08207 296591009557 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 296591009558 RNA binding site [nucleotide binding]; other site 296591009559 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 296591009560 RNA binding site [nucleotide binding]; other site 296591009561 Predicted Rossmann fold nucleotide-binding protein [General function prediction only]; Region: COG1611 296591009562 Major Facilitator Superfamily; Region: MFS_1; pfam07690 296591009563 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 296591009564 putative substrate translocation pore; other site 296591009565 RmuC family; Region: RmuC; pfam02646 296591009566 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 296591009567 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 296591009568 dimerization interface [polypeptide binding]; other site 296591009569 ligand binding site [chemical binding]; other site 296591009570 NADP binding site [chemical binding]; other site 296591009571 catalytic site [active] 296591009572 Na+/H+ antiporter NhaD and related arsenite permeases [Inorganic ion transport and metabolism]; Region: ArsB; COG1055 296591009573 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 296591009574 transmembrane helices; other site 296591009575 nicotinate phosphoribosyltransferase; Region: NAPRTase; TIGR01514 296591009576 Nicotinate phosphoribosyltransferase (NAPRTase), related to PncB. Nicotinate phosphoribosyltransferase catalyses the formation of NAMN and PPi from 5-phosphoribosy -1-pyrophosphate (PRPP) and nicotinic acid, this is the first, and also rate limiting; Region: PncB_like; cd01401 296591009577 active site 296591009578 FKBP-type peptidyl-prolyl cis-trans isomerases 1 [Posttranslational modification, protein turnover, chaperones]; Region: FkpA; COG0545 296591009579 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 296591009580 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 296591009581 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 296591009582 Walker A/P-loop; other site 296591009583 ATP binding site [chemical binding]; other site 296591009584 Q-loop/lid; other site 296591009585 ABC transporter signature motif; other site 296591009586 Walker B; other site 296591009587 D-loop; other site 296591009588 H-loop/switch region; other site 296591009589 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 296591009590 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 296591009591 Walker A/P-loop; other site 296591009592 ATP binding site [chemical binding]; other site 296591009593 Q-loop/lid; other site 296591009594 ABC transporter signature motif; other site 296591009595 Walker B; other site 296591009596 D-loop; other site 296591009597 H-loop/switch region; other site 296591009598 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 296591009599 TM-ABC transporter signature motif; other site 296591009600 Transmembrane subunit (TM) of Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporters which are involved in the uptake of branched-chain amino acids (AAs), as well as TMs of transporters involved in the uptake of...; Region: TM_PBP1_branched-chain-AA_like; cl00454 296591009601 TM-ABC transporter signature motif; other site 296591009602 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 296591009603 putative FMN binding site [chemical binding]; other site 296591009604 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 296591009605 active site 296591009606 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 296591009607 Histone deacetylase class IV also known as histone deacetylase 11; Region: HDAC_classIV; cd09993 296591009608 putative active site [active] 296591009609 Zn binding site [ion binding]; other site 296591009610 Phasin protein; Region: Phasin_2; pfam09361 296591009611 putative transposase OrfB; Reviewed; Region: PHA02517 296591009612 Integrase core domain; Region: rve; pfam00665 296591009613 Integrase core domain; Region: rve_3; pfam13683 296591009614 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 296591009615 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 296591009616 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 296591009617 nucleophile elbow; other site 296591009618 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 296591009619 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 296591009620 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK08217 296591009621 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 296591009622 NAD binding site [chemical binding]; other site 296591009623 homodimer interface [polypeptide binding]; other site 296591009624 homotetramer interface [polypeptide binding]; other site 296591009625 active site 296591009626 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 296591009627 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 296591009628 Virulence factor BrkB; Region: Virul_fac_BrkB; pfam03631 296591009629 DNA primase, catalytic core; Region: dnaG; TIGR01391 296591009630 CHC2 zinc finger; Region: zf-CHC2; pfam01807 296591009631 DNA primase catalytic core, N-terminal domain; Region: Toprim_N; pfam08275 296591009632 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 296591009633 active site 296591009634 metal binding site [ion binding]; metal-binding site 296591009635 interdomain interaction site; other site 296591009636 DnaB-helicase binding domain of primase; Region: DnaB_bind; pfam10410 296591009637 RNA polymerase sigma factor RpoD; Validated; Region: PRK05658 296591009638 Sigma-70 factor, region 1.1; Region: Sigma70_r1_1; pfam03979 296591009639 Sigma-70 factor, region 1.2; Region: Sigma70_r1_2; pfam00140 296591009640 Sigma-70, non-essential region; Region: Sigma70_ner; pfam04546 296591009641 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 296591009642 Sigma-70 region 3; Region: Sigma70_r3; pfam04539 296591009643 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 296591009644 DNA binding residues [nucleotide binding] 296591009645 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 296591009646 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 1. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_1; cd03326 296591009647 putative active site pocket [active] 296591009648 metal binding site [ion binding]; metal-binding site 296591009649 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591009650 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591009651 LysR substrate binding domain; Region: LysR_substrate; pfam03466 296591009652 galactose mutarotase_like; Region: galactose_mutarotase_like; cd09019 296591009653 active site 296591009654 catalytic residues [active] 296591009655 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591009656 tartronate semialdehyde reductase; Provisional; Region: PRK15059 296591009657 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 296591009658 alpha-dehydro-beta-deoxy-D-glucarate aldolase; Provisional; Region: PRK10558 296591009659 galactarate dehydratase; Region: galactar-dH20; TIGR03248 296591009660 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 296591009661 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 296591009662 DctM-like transporters; Region: DctM; pfam06808 296591009663 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 296591009664 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 296591009665 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 296591009666 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 296591009667 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 296591009668 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 296591009669 extended (e) SDRs; Region: SDR_e; cd08946 296591009670 NAD(P) binding site [chemical binding]; other site 296591009671 active site 296591009672 substrate binding site [chemical binding]; other site 296591009673 Transcriptional regulators [Transcription]; Region: FadR; COG2186 296591009674 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591009675 DNA-binding site [nucleotide binding]; DNA binding site 296591009676 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 296591009677 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 296591009678 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 296591009679 substrate binding site [chemical binding]; other site 296591009680 oxyanion hole (OAH) forming residues; other site 296591009681 trimer interface [polypeptide binding]; other site 296591009682 feruloyl-CoA synthase; Reviewed; Region: PRK08180 296591009683 Feruloyl-CoA synthetase (FCS); Region: FCS; cd05921 296591009684 acyl-activating enzyme (AAE) consensus motif; other site 296591009685 putative AMP binding site [chemical binding]; other site 296591009686 putative active site [active] 296591009687 putative CoA binding site [chemical binding]; other site 296591009688 putative acyltransferase; Provisional; Region: PRK05790 296591009689 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 296591009690 dimer interface [polypeptide binding]; other site 296591009691 active site 296591009692 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 296591009693 17hydroxysteroid dehydrogenase type 10 (HSD10)-like, classical (c) SDRs; Region: HSD10-like_SDR_c; cd05371 296591009694 NAD binding site [chemical binding]; other site 296591009695 homodimer interface [polypeptide binding]; other site 296591009696 homotetramer interface [polypeptide binding]; other site 296591009697 active site 296591009698 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 296591009699 active site 296591009700 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591009701 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 296591009702 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 296591009703 trimer interface [polypeptide binding]; other site 296591009704 eyelet of channel; other site 296591009705 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 296591009706 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 296591009707 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 296591009708 active site 296591009709 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 296591009710 MarR family; Region: MarR_2; pfam12802 296591009711 Predicted transcriptional regulators [Transcription]; Region: COG1733 296591009712 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591009713 Transcriptional regulators [Transcription]; Region: GntR; COG1802 296591009714 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591009715 DNA-binding site [nucleotide binding]; DNA binding site 296591009716 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 296591009717 GrpE; Region: GrpE; pfam01025 296591009718 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 296591009719 dimer interface [polypeptide binding]; other site 296591009720 hsp70 (ATPase domain) interactions [polypeptide binding]; other site 296591009721 molecular chaperone DnaK; Provisional; Region: dnaK; PRK00290 296591009722 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 296591009723 nucleotide binding site [chemical binding]; other site 296591009724 chaperone protein DnaJ; Provisional; Region: PRK10767 296591009725 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 296591009726 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cl03262 296591009727 substrate binding site [polypeptide binding]; other site 296591009728 Zinc finger domain of DnaJ and HSP40; Region: DnaJ_zf; cd10719 296591009729 Zn binding sites [ion binding]; other site 296591009730 C-terminal substrate binding domain of DnaJ and HSP40; Region: DnaJ_C; cd10747 296591009731 dimer interface [polypeptide binding]; other site 296591009732 glycerophosphodiester phosphodiesterase; Provisional; Region: glpQ; PRK11143 296591009733 Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins; Region: GDPD_ScGlpQ1_like; cd08602 296591009734 putative active site [active] 296591009735 catalytic site [active] 296591009736 putative metal binding site [ion binding]; other site 296591009737 Zn-dependent alcohol dehydrogenases, class III [Energy production and conversion]; Region: AdhC; COG1062 296591009738 class III alcohol dehydrogenases; Region: alcohol_DH_class_III; cd08300 296591009739 substrate binding site [chemical binding]; other site 296591009740 catalytic Zn binding site [ion binding]; other site 296591009741 NAD binding site [chemical binding]; other site 296591009742 structural Zn binding site [ion binding]; other site 296591009743 dimer interface [polypeptide binding]; other site 296591009744 putative metal dependent hydrolase; Provisional; Region: PRK11598 296591009745 Domain of unknown function (DUF1705); Region: DUF1705; pfam08019 296591009746 Sulfatase; Region: Sulfatase; pfam00884 296591009747 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 296591009748 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 296591009749 substrate binding pocket [chemical binding]; other site 296591009750 membrane-bound complex binding site; other site 296591009751 hinge residues; other site 296591009752 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 296591009753 dimer interface [polypeptide binding]; other site 296591009754 conserved gate region; other site 296591009755 putative PBP binding loops; other site 296591009756 ABC-ATPase subunit interface; other site 296591009757 Uncharacterized protein conserved in bacteria [Function unknown]; Region: ErfK; COG1376 296591009758 L,D-transpeptidase catalytic domain; Region: YkuD; pfam03734 296591009759 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 296591009760 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 296591009761 Coenzyme A binding pocket [chemical binding]; other site 296591009762 DNA repair photolyase [DNA replication, recombination, and repair]; Region: SplB; COG1533 296591009763 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 296591009764 FeS/SAM binding site; other site 296591009765 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 296591009766 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 296591009767 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 296591009768 Dopa 4,5-dioxygenase family; Region: DOPA_dioxygen; pfam08883 296591009769 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 296591009770 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 296591009771 FMN binding site [chemical binding]; other site 296591009772 substrate binding site [chemical binding]; other site 296591009773 putative catalytic residue [active] 296591009774 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 296591009775 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 296591009776 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 296591009777 active site 296591009778 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 296591009779 Electron transfer flavoprotein, alpha subunit [Energy production and conversion]; Region: FixB; COG2025 296591009780 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 296591009781 Electron transfer flavoprotein FAD-binding domain; Region: ETF_alpha; pfam00766 296591009782 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 296591009783 Ligand binding site [chemical binding]; other site 296591009784 Electron transfer flavoprotein domain; Region: ETF; pfam01012 296591009785 Small-conductance mechanosensitive channel [Cell envelope biogenesis, outer membrane]; Region: MscS; COG0668 296591009786 Mechanosensitive ion channel; Region: MS_channel; pfam00924 296591009787 Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]; Region: AcuC; COG0123 296591009788 Histone deacetylases and histone-like deacetylases, classII; Region: HDAC_classII_2; cd11599 296591009789 putative active site [active] 296591009790 Zn binding site [ion binding]; other site 296591009791 MoxR-like ATPases [General function prediction only]; Region: COG0714 296591009792 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 296591009793 Walker A motif; other site 296591009794 ATP binding site [chemical binding]; other site 296591009795 Walker B motif; other site 296591009796 arginine finger; other site 296591009797 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 296591009798 Protein of unknown function DUF58; Region: DUF58; pfam01882 296591009799 Domain of unknown function (DUF3488); Region: DUF3488; pfam11992 296591009800 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 296591009801 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 296591009802 Transglycosylase SLT domain; Region: SLT_2; pfam13406 296591009803 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 296591009804 N-acetyl-D-glucosamine binding site [chemical binding]; other site 296591009805 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 296591009806 SNARE associated Golgi protein; Region: SNARE_assoc; pfam09335 296591009807 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 296591009808 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 296591009809 ligand binding site [chemical binding]; other site 296591009810 flexible hinge region; other site 296591009811 Cytochrome B561 [Energy production and conversion]; Region: CybB; COG3038 296591009812 YceI-like domain; Region: YceI; pfam04264 296591009813 Uncharacterized conserved protein [Function unknown]; Region: COG2353 296591009814 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 296591009815 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 296591009816 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 296591009817 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 296591009818 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 296591009819 Uncharacterized conserved protein [Function unknown]; Region: COG2308 296591009820 Domain of unknown function (DUF4131); Region: DUF4131; pfam13567 296591009821 Competence protein; Region: Competence; pfam03772 296591009822 Predicted hydrolase (metallo-beta-lactamase superfamily) [General function prediction only]; Region: ComEC; COG2333 296591009823 Metallo-beta-lactamase superfamily; Region: Lactamase_B; pfam00753 296591009824 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 296591009825 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 296591009826 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 296591009827 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 296591009828 Putative amidoligase enzyme (DUF2126); Region: DUF2126; pfam09899 296591009829 A circularly permuted ATPgrasp; Region: CP_ATPgrasp_1; cl17448 296591009830 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2307 296591009831 A predicted alpha-helical domain with a conserved ER motif; Region: Alpha-E; pfam04168 296591009832 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 296591009833 Bacterial transglutaminase-like N-terminal region; Region: Bact_transglu_N; pfam08379 296591009834 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 296591009835 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 296591009836 homotrimer interaction site [polypeptide binding]; other site 296591009837 putative active site [active] 296591009838 DNA topoisomerase IV subunit A; Validated; Region: PRK05561 296591009839 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 296591009840 CAP-like domain; other site 296591009841 active site 296591009842 primary dimer interface [polypeptide binding]; other site 296591009843 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 296591009844 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 296591009845 N-acetyl-D-glucosamine binding site [chemical binding]; other site 296591009846 catalytic residue [active] 296591009847 DNA topoisomerase IV subunit B; Reviewed; Region: PRK05559 296591009848 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 296591009849 ATP binding site [chemical binding]; other site 296591009850 Mg2+ binding site [ion binding]; other site 296591009851 G-X-G motif; other site 296591009852 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 296591009853 anchoring element; other site 296591009854 dimer interface [polypeptide binding]; other site 296591009855 ATP binding site [chemical binding]; other site 296591009856 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 296591009857 active site 296591009858 metal binding site [ion binding]; metal-binding site 296591009859 DNA gyrase B subunit, carboxyl terminus; Region: DNA_gyraseB_C; pfam00986 296591009860 Transposase zinc-ribbon domain; Region: Zn_Tnp_IS1595; pfam12760 296591009861 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3677 296591009862 ISXO2-like transposase domain; Region: DDE_Tnp_IS1595; pfam12762 296591009863 Major Facilitator Superfamily; Region: MFS_1; pfam07690 296591009864 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 296591009865 putative substrate translocation pore; other site 296591009866 short chain dehydrogenase; Provisional; Region: PRK06181 296591009867 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591009868 NAD(P) binding site [chemical binding]; other site 296591009869 active site 296591009870 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 296591009871 S-adenosylmethionine binding site [chemical binding]; other site 296591009872 Dihydrodipicolinate synthase (DHDPS); Region: DHDPS; cd00950 296591009873 dihydrodipicolinate synthase; Region: dapA; TIGR00674 296591009874 dimer interface [polypeptide binding]; other site 296591009875 active site 296591009876 catalytic residue [active] 296591009877 Uncharacterized lipoprotein [Cell envelope biogenesis, outer membrane]; Region: NlpB; COG3317 296591009878 NlpB/DapX lipoprotein; Region: Lipoprotein_18; pfam06804 296591009879 Metal-dependent hydrolases of the beta-lactamase superfamily I [General function prediction only]; Region: PhnP; COG1235 296591009880 Uncharacterized conserved protein [Function unknown]; Region: COG2850 296591009881 Cupin-like domain; Region: Cupin_8; pfam13621 296591009882 FKBP-type peptidyl-prolyl cis-trans isomerases 2 [Posttranslational modification, protein turnover, chaperones]; Region: SlpA; COG1047 296591009883 FKBP-type peptidyl-prolyl cis-trans isomerase; Region: FKBP_C; pfam00254 296591009884 Trimeric dUTP diphosphatases; Region: trimeric_dUTPase; cd07557 296591009885 trimer interface [polypeptide binding]; other site 296591009886 active site 296591009887 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated; Region: PRK05579 296591009888 Flavoprotein; Region: Flavoprotein; pfam02441 296591009889 DNA / pantothenate metabolism flavoprotein; Region: DFP; pfam04127 296591009890 CTP synthetase; Validated; Region: pyrG; PRK05380 296591009891 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 296591009892 Catalytic site [active] 296591009893 active site 296591009894 UTP binding site [chemical binding]; other site 296591009895 Type 1 glutamine amidotransferase (GATase1) domain found in Cytidine Triphosphate Synthetase; Region: GATase1_CTP_Synthase; cd01746 296591009896 active site 296591009897 putative oxyanion hole; other site 296591009898 catalytic triad [active] 296591009899 2-dehydro-3-deoxyphosphooctonate aldolase; Provisional; Region: PRK05198 296591009900 DAHP synthetase I family; Region: DAHP_synth_1; pfam00793 296591009901 Uncharacterized conserved protein [Function unknown]; Region: COG5470 296591009902 enolase; Provisional; Region: eno; PRK00077 296591009903 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 296591009904 dimer interface [polypeptide binding]; other site 296591009905 metal binding site [ion binding]; metal-binding site 296591009906 substrate binding pocket [chemical binding]; other site 296591009907 Septum formation initiator [Cell division and chromosome partitioning]; Region: COG2919 296591009908 Septum formation initiator; Region: DivIC; cl17659 296591009909 Hsp33-like chaperonin; Reviewed; Region: hslO; PRK00114 296591009910 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 296591009911 dimerization interface [polypeptide binding]; other site 296591009912 domain crossover interface; other site 296591009913 redox-dependent activation switch; other site 296591009914 Carbonic anhydrases/acetyltransferases, isoleucine patch superfamily [General function prediction only]; Region: PaaY; COG0663 296591009915 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 296591009916 trimer interface [polypeptide binding]; other site 296591009917 putative metal binding site [ion binding]; other site 296591009918 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 296591009919 dinuclear metal binding motif [ion binding]; other site 296591009920 Mycolic acid cyclopropane synthetase; Region: CMAS; pfam02353 296591009921 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 296591009922 S-adenosylmethionine binding site [chemical binding]; other site 296591009923 site-specific tyrosine recombinase XerD; Reviewed; Region: xerD; PRK00283 296591009924 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 296591009925 active site 296591009926 Int/Topo IB signature motif; other site 296591009927 Protein of unknown function (DUF4242); Region: DUF4242; pfam14026 296591009928 AAA ATPase domain; Region: AAA_16; pfam13191 296591009929 NACHT domain; Region: NACHT; pfam05729 296591009930 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 296591009931 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 296591009932 DNA binding residues [nucleotide binding] 296591009933 dimerization interface [polypeptide binding]; other site 296591009934 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591009935 Membrane transport protein; Region: Mem_trans; cl09117 296591009936 Homeodomain-like domain; Region: HTH_23; pfam13384 296591009937 Winged helix-turn helix; Region: HTH_29; pfam13551 296591009938 Homeodomain-like domain; Region: HTH_32; pfam13565 296591009939 DDE superfamily endonuclease; Region: DDE_3; pfam13358 296591009940 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 296591009941 epoxyqueuosine reductase; Region: TIGR00276 296591009942 Domain of unknown function (DUF1730); Region: DUF1730; pfam08331 296591009943 Predicted ATPase or kinase [General function prediction only]; Region: COG0802 296591009944 AMIN domain; Region: AMIN; pfam11741 296591009945 N-acetylmuramoyl-L-alanine amidase [Cell envelope biogenesis, outer membrane]; Region: AmiC; COG0860 296591009946 N-acetylmuramoyl-L-alanine amidase or MurNAc-LAA (also known as peptidoglycan aminohydrolase, NAMLA amidase, NAMLAA, Amidase 3, and peptidoglycan amidase; EC 3.5.1.28) is an autolysin that hydrolyzes the amide bond between N-acetylmuramoyl and L-amino...; Region: MurNAc-LAA; cd02696 296591009947 active site 296591009948 metal binding site [ion binding]; metal-binding site 296591009949 Bacterial protein of unknown function (DUF839); Region: DUF839; pfam05787 296591009950 Fructokinases (FRKs) mainly from bacteria and plants are enzymes with high specificity for fructose, as are all FRKs, but they catalyzes the conversion of fructose to fructose-6-phosphate, which is an entry point into glycolysis via conversion into...; Region: bac_FRK; cd01167 296591009951 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 296591009952 putative substrate binding site [chemical binding]; other site 296591009953 putative ATP binding site [chemical binding]; other site 296591009954 Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily; Region: PBP1_ABC_sugar_binding_like; cd01536 296591009955 Periplasmic binding protein domain; Region: Peripla_BP_4; pfam13407 296591009956 ligand binding site [chemical binding]; other site 296591009957 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 296591009958 Transmembrane subunit (TM) of Escherichia coli AraH and related proteins. E. coli AraH is the TM of a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of the monosaccharide arabinose. This group...; Region: TM_PBP1_transp_AraH_like; cd06579 296591009959 TM-ABC transporter signature motif; other site 296591009960 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 296591009961 First domain of the ATP-binding cassette component of monosaccharide transport system; Region: ABC_Carb_Monos_I; cd03216 296591009962 Walker A/P-loop; other site 296591009963 ATP binding site [chemical binding]; other site 296591009964 Q-loop/lid; other site 296591009965 ABC transporter signature motif; other site 296591009966 Walker B; other site 296591009967 D-loop; other site 296591009968 H-loop/switch region; other site 296591009969 RbsD / FucU transport protein family; Region: RbsD_FucU; pfam05025 296591009970 MarR family; Region: MarR_2; pfam12802 296591009971 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 296591009972 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 296591009973 SNARE associated Golgi protein; Region: SNARE_assoc; cl00429 296591009974 Uncharacterized membrane-associated protein [Function unknown]; Region: DedA; COG0586 296591009975 DNA mismatch repair protein; Reviewed; Region: mutL; PRK00095 296591009976 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 296591009977 ATP binding site [chemical binding]; other site 296591009978 Mg2+ binding site [ion binding]; other site 296591009979 G-X-G motif; other site 296591009980 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 296591009981 ATP binding site [chemical binding]; other site 296591009982 MutL C terminal dimerisation domain; Region: MutL_C; pfam08676 296591009983 Esterase/lipase [Lipid metabolism]; Region: Aes; COG0657 296591009984 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 296591009985 Alpha/beta hydrolase family; Region: Abhydrolase_5; pfam12695 296591009986 drug resistance transporter, Bcr/CflA subfamily; Region: efflux_Bcr_CflA; TIGR00710 296591009987 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 296591009988 putative substrate translocation pore; other site 296591009989 tRNA delta(2)-isopentenylpyrophosphate transferase; Reviewed; Region: miaA; PRK00091 296591009990 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; COG0324 296591009991 Conserved TM helix; Region: TM_helix; pfam05552 296591009992 Conserved TM helix; Region: TM_helix; pfam05552 296591009993 ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]; Region: SalX; COG1136 296591009994 ATP-binding cassette domain of the transporters involved in export of lipoprotein and macrolide, and cell division protein; Region: ABC_MJ0796_LolCDE_FtsE; cd03255 296591009995 Walker A/P-loop; other site 296591009996 ATP binding site [chemical binding]; other site 296591009997 Q-loop/lid; other site 296591009998 ABC transporter signature motif; other site 296591009999 Walker B; other site 296591010000 D-loop; other site 296591010001 H-loop/switch region; other site 296591010002 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 296591010003 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 296591010004 tetramer interface [polypeptide binding]; other site 296591010005 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591010006 catalytic residue [active] 296591010007 2-aminoethylphosphonate--pyruvate transaminase; Provisional; Region: PRK13479 296591010008 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 296591010009 catalytic residue [active] 296591010010 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 296591010011 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 296591010012 dimer interface [polypeptide binding]; other site 296591010013 conserved gate region; other site 296591010014 putative PBP binding loops; other site 296591010015 ABC-ATPase subunit interface; other site 296591010016 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 296591010017 dimer interface [polypeptide binding]; other site 296591010018 conserved gate region; other site 296591010019 putative PBP binding loops; other site 296591010020 ABC-ATPase subunit interface; other site 296591010021 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 296591010022 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 296591010023 Walker A/P-loop; other site 296591010024 ATP binding site [chemical binding]; other site 296591010025 Q-loop/lid; other site 296591010026 ABC transporter signature motif; other site 296591010027 Walker B; other site 296591010028 D-loop; other site 296591010029 H-loop/switch region; other site 296591010030 TOBE domain; Region: TOBE_2; pfam08402 296591010031 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 296591010032 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591010033 DNA-binding site [nucleotide binding]; DNA binding site 296591010034 FCD domain; Region: FCD; pfam07729 296591010035 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 296591010036 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 296591010037 putative phosphonoacetaldehyde dehydrogenase; Region: PhnAcAld_DH; TIGR03250 296591010038 Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like; Region: ALDH_PhpJ; cd07146 296591010039 NAD(P) binding site [chemical binding]; other site 296591010040 catalytic residues [active] 296591010041 Alanine dehydrogenase [Amino acid transport and metabolism]; Region: Ald; COG0686 296591010042 Alanine dehydrogenase NAD-binding and catalytic domains; Region: L-AlaDH; cd05305 296591010043 hexamer interface [polypeptide binding]; other site 296591010044 ligand binding site [chemical binding]; other site 296591010045 putative active site [active] 296591010046 NAD(P) binding site [chemical binding]; other site 296591010047 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 296591010048 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 296591010049 MacB-like periplasmic core domain; Region: MacB_PCD; pfam12704 296591010050 ABC-type antimicrobial peptide transport system, permease component [Defense mechanisms]; Region: SalY; COG0577 296591010051 FtsX-like permease family; Region: FtsX; pfam02687 296591010052 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 296591010053 Ligand Binding Site [chemical binding]; other site 296591010054 Hydroxyneurosporene synthase (CrtC); Region: CrtC; pfam07143 296591010055 Uncharacterized conserved protein [Function unknown]; Region: COG5470 296591010056 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 296591010057 homotrimer interaction site [polypeptide binding]; other site 296591010058 putative active site [active] 296591010059 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591010060 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591010061 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 296591010062 drug resistance transporter, EmrB/QacA subfamily; Region: efflux_EmrB; TIGR00711 296591010063 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 296591010064 putative substrate translocation pore; other site 296591010065 efflux pump membrane protein (multidrug resistance protein A); Region: 8a0101; TIGR00998 296591010066 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 296591010067 HlyD family secretion protein; Region: HlyD_3; pfam13437 296591010068 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 296591010069 helix_turn_helix multiple antibiotic resistance protein; Region: HTH_MARR; smart00347 296591010070 MarR family; Region: MarR_2; cl17246 296591010071 ABC transporter, permease/ATP-binding protein; Region: MsbA_rel; TIGR02204 296591010072 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 296591010073 ATP-binding cassette domain of a mitochondrial protein MTABC3 and related proteins; Region: ABC_MTABC3_MDL1_MDL2; cd03249 296591010074 Walker A/P-loop; other site 296591010075 ATP binding site [chemical binding]; other site 296591010076 Q-loop/lid; other site 296591010077 ABC transporter signature motif; other site 296591010078 Walker B; other site 296591010079 D-loop; other site 296591010080 H-loop/switch region; other site 296591010081 Glutamate dehydrogenase/leucine dehydrogenase [Amino acid transport and metabolism]; Region: GdhA; COG0334 296591010082 Glu/Leu/Phe/Val dehydrogenase, dimerisation domain; Region: ELFV_dehydrog_N; pfam02812 296591010083 NAD(P) binding domain of glutamate dehydrogenase, subgroup 1; Region: NAD_bind_1_Glu_DH; cd01076 296591010084 NAD(P) binding site [chemical binding]; other site 296591010085 Protein of unknown function (DUF1178); Region: DUF1178; pfam06676 296591010086 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 296591010087 dimer interface [polypeptide binding]; other site 296591010088 ADP-ribose binding site [chemical binding]; other site 296591010089 active site 296591010090 nudix motif; other site 296591010091 metal binding site [ion binding]; metal-binding site 296591010092 Protein of unknown function (DUF2818); Region: DUF2818; pfam10993 296591010093 NADH:ubiquinone oxidoreductase subunit N; Provisional; Region: PRK05777 296591010094 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 296591010095 NADH:ubiquinone oxidoreductase subunit M; Reviewed; Region: PRK05846 296591010096 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 296591010097 NADH:ubiquinone oxidoreductase subunit L; Reviewed; Region: PRK06590 296591010098 NADH-Ubiquinone oxidoreductase (complex I), chain 5 N-terminus; Region: Oxidored_q1_N; pfam00662 296591010099 NADH-Ubiquinone/plastoquinone (complex I), various chains; Region: Oxidored_q1; pfam00361 296591010100 NADH:ubiquinone oxidoreductase subunit K; Validated; Region: PRK05715 296591010101 NADH:ubiquinone oxidoreductase subunit J; Provisional; Region: PRK06638 296591010102 NADH dehydrogenase subunit J; Provisional; Region: PRK06433 296591010103 NADH-quinone oxidoreductase, chain I; Region: NuoI; TIGR01971 296591010104 4Fe-4S binding domain; Region: Fer4; pfam00037 296591010105 4Fe-4S binding domain; Region: Fer4; pfam00037 296591010106 NADH:ubiquinone oxidoreductase subunit H; Provisional; Region: PRK06076 296591010107 NADH dehydrogenase subunit G; Validated; Region: PRK09129 296591010108 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 296591010109 catalytic loop [active] 296591010110 iron binding site [ion binding]; other site 296591010111 NADH-ubiquinone oxidoreductase-G iron-sulfur binding region; Region: NADH-G_4Fe-4S_3; pfam10588 296591010112 MopB_NDH-1_NuoG2: The second domain of the NuoG subunit of the NADH-quinone oxidoreductase/NADH dehydrogenase-1 (NDH-1), found in beta- and gammaproteobacteria. The NDH-1 is the first energy-transducting complex in the respiratory chain and functions as...; Region: MopB_NDH-1_NuoG2; cd02772 296591010113 NADH:ubiquinone oxidoreductase, NADH-binding (51 kD) subunit [Energy production and conversion]; Region: NuoF; COG1894 296591010114 SLBB domain; Region: SLBB; pfam10531 296591010115 NADH-ubiquinone oxidoreductase-F iron-sulfur binding region; Region: NADH_4Fe-4S; smart00928 296591010116 NADH dehydrogenase subunit E; Validated; Region: PRK07539 296591010117 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 296591010118 putative dimer interface [polypeptide binding]; other site 296591010119 [2Fe-2S] cluster binding site [ion binding]; other site 296591010120 NADH:ubiquinone oxidoreductase 49 kD subunit 7 [Energy production and conversion]; Region: NuoD; COG0649 296591010121 NADH dehydrogenase subunit D; Validated; Region: PRK06075 296591010122 NADH dehydrogenase subunit C; Provisional; Region: PRK06074 296591010123 Respiratory-chain NADH dehydrogenase, 30 Kd subunit; Region: Complex1_30kDa; cl16917 296591010124 NADH dehydrogenase subunit B; Validated; Region: PRK06411 296591010125 NADH:ubiquinone oxidoreductase subunit A; Validated; Region: PRK06602 296591010126 Preprotein translocase SecG subunit; Region: SecG; pfam03840 296591010127 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 296591010128 dimer interface [polypeptide binding]; other site 296591010129 substrate binding site [chemical binding]; other site 296591010130 catalytic triad [active] 296591010131 putative NAD(P)H quinone oxidoreductase, PIG3 family; Region: quinone_pig3; TIGR02824 296591010132 PIG3 p53-inducible quinone oxidoreductase; Region: p53_inducible_oxidoreductase; cd05276 296591010133 NAD(P) binding site [chemical binding]; other site 296591010134 polynucleotide phosphorylase/polyadenylase; Provisional; Region: PRK11824 296591010135 Polyribonucleotide nucleotidyltransferase, repeat 1; Region: RNase_PH_PNPase_1; cd11363 296591010136 RNase E interface [polypeptide binding]; other site 296591010137 trimer interface [polypeptide binding]; other site 296591010138 Polyribonucleotide nucleotidyltransferase, RNA binding domain; Region: PNPase; pfam03726 296591010139 Polyribonucleotide nucleotidyltransferase, repeat 2; Region: RNase_PH_PNPase_2; cd11364 296591010140 RNase E interface [polypeptide binding]; other site 296591010141 trimer interface [polypeptide binding]; other site 296591010142 active site 296591010143 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 296591010144 putative nucleic acid binding region [nucleotide binding]; other site 296591010145 G-X-X-G motif; other site 296591010146 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 296591010147 RNA binding site [nucleotide binding]; other site 296591010148 domain interface; other site 296591010149 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 296591010150 16S/18S rRNA binding site [nucleotide binding]; other site 296591010151 S13e-L30e interaction site [polypeptide binding]; other site 296591010152 25S rRNA binding site [nucleotide binding]; other site 296591010153 aspartate aminotransferase; Provisional; Region: PRK06108 296591010154 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 296591010155 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591010156 homodimer interface [polypeptide binding]; other site 296591010157 catalytic residue [active] 296591010158 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 296591010159 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_SBP_like_3; cd06329 296591010160 putative ligand binding site [chemical binding]; other site 296591010161 Molecular chaperone (small heat shock protein) [Posttranslational modification, protein turnover, chaperones]; Region: IbpA; COG0071 296591010162 Alpha-crystallin domain (ACD) of alpha-crystallin-type small(s) heat shock proteins (Hsps). sHsps are small stress induced proteins with monomeric masses between 12 -43 kDa, whose common feature is the Alpha-crystallin domain (ACD). sHsps are generally...; Region: ACD_sHsps-like; cd06464 296591010163 putative dimer interface [polypeptide binding]; other site 296591010164 UGMP family protein; Validated; Region: PRK09604 296591010165 Inactive homolog of metal-dependent proteases, putative molecular chaperone [Posttranslational modification, protein turnover, chaperones]; Region: COG1214; cl17884 296591010166 Response regulator with putative antiterminator output domain [Signal transduction mechanisms]; Region: AmiR; COG3707 296591010167 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 296591010168 active site 296591010169 phosphorylation site [posttranslational modification] 296591010170 intermolecular recognition site; other site 296591010171 dimerization interface [polypeptide binding]; other site 296591010172 ANTAR domain; Region: ANTAR; pfam03861 296591010173 ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]; Region: TauA; COG0715 296591010174 NMT1-like family; Region: NMT1_2; pfam13379 296591010175 ABC-type nitrate/sulfonate/bicarbonate transport system, permease component [Inorganic ion transport and metabolism]; Region: TauC; COG0600 296591010176 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 296591010177 dimer interface [polypeptide binding]; other site 296591010178 conserved gate region; other site 296591010179 putative PBP binding loops; other site 296591010180 ABC-ATPase subunit interface; other site 296591010181 ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]; Region: TauB; COG1116 296591010182 ATP-binding cassette domain of the nitrate and sulfonate transporters; Region: ABC_NrtD_SsuB_transporters; cd03293 296591010183 Walker A/P-loop; other site 296591010184 ATP binding site [chemical binding]; other site 296591010185 Q-loop/lid; other site 296591010186 ABC transporter signature motif; other site 296591010187 Walker B; other site 296591010188 D-loop; other site 296591010189 H-loop/switch region; other site 296591010190 PAS domain; Region: PAS_9; pfam13426 296591010191 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 296591010192 putative binding surface; other site 296591010193 active site 296591010194 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 296591010195 ATP binding site [chemical binding]; other site 296591010196 Mg2+ binding site [ion binding]; other site 296591010197 G-X-G motif; other site 296591010198 Response regulator receiver domain; Region: Response_reg; pfam00072 296591010199 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 296591010200 active site 296591010201 phosphorylation site [posttranslational modification] 296591010202 intermolecular recognition site; other site 296591010203 dimerization interface [polypeptide binding]; other site 296591010204 Chemotaxis phosphatase CheX; Region: CheX; pfam13690 296591010205 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 296591010206 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 296591010207 putative substrate translocation pore; other site 296591010208 Protein phosphatase 2C; Region: PP2C; pfam00481 296591010209 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 296591010210 active site 296591010211 Catalytic domain of Protein Kinases; Region: PKc; cd00180 296591010212 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 296591010213 active site 296591010214 ATP binding site [chemical binding]; other site 296591010215 substrate binding site [chemical binding]; other site 296591010216 activation loop (A-loop); other site 296591010217 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 296591010218 active site 296591010219 phosphorylation site [posttranslational modification] 296591010220 intermolecular recognition site; other site 296591010221 dimerization interface [polypeptide binding]; other site 296591010222 ANTAR domain; Region: ANTAR; pfam03861 296591010223 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 296591010224 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 296591010225 NAD(P)H-nitrite reductase [Energy production and conversion]; Region: NirB; COG1251 296591010226 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 296591010227 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 296591010228 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 296591010229 Nitrite/Sulfite reductase ferredoxin-like half domain; Region: NIR_SIR_ferr; pfam03460 296591010230 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 296591010231 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 296591010232 Small subunit of nitrite reductase (NirD) family, Rieske domain; composed of proteins similar to the Bacillus subtilis small subunit of assimilatory nitrite reductase containing a Rieske domain. The Rieske domain is a [2Fe-2S] cluster binding domain...; Region: Rieske_NirD_small_Bacillus; cd03530 296591010233 [2Fe-2S] cluster binding site [ion binding]; other site 296591010234 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 296591010235 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 296591010236 [4Fe-4S] binding site [ion binding]; other site 296591010237 molybdopterin cofactor binding site; other site 296591010238 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 296591010239 molybdopterin cofactor binding site; other site 296591010240 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 296591010241 glycosyl transferase family protein; Provisional; Region: PRK08136 296591010242 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 296591010243 Uroporphyrin-III C-methyltransferase (S-Adenosyl-L-methionine:uroporphyrinogen III methyltransferase, SUMT); Region: SUMT; cd11642 296591010244 active site 296591010245 SAM binding site [chemical binding]; other site 296591010246 homodimer interface [polypeptide binding]; other site 296591010247 metallophosphatase superfamily, metallophosphatase domain; Region: MPP_superfamily; cl13995 296591010248 putative FAD-binding dehydrogenase; Reviewed; Region: PRK12834 296591010249 HI0933-like protein; Region: HI0933_like; pfam03486 296591010250 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 296591010251 30S ribosomal protein S21; Reviewed; Region: rpsU; PRK00270 296591010252 Yqey-like protein; Region: YqeY; pfam09424 296591010253 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 296591010254 Domain of unknown function (DUF4399); Region: DUF4399; pfam14347 296591010255 peptidase PmbA; Provisional; Region: PRK11040 296591010256 Protein of unknown function (DUF615); Region: DUF615; pfam04751 296591010257 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 296591010258 MPT binding site; other site 296591010259 trimer interface [polypeptide binding]; other site 296591010260 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 296591010261 Amidase; Region: Amidase; cl11426 296591010262 serine O-acetyltransferase; Region: cysE; TIGR01172 296591010263 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 296591010264 trimer interface [polypeptide binding]; other site 296591010265 active site 296591010266 substrate binding site [chemical binding]; other site 296591010267 CoA binding site [chemical binding]; other site 296591010268 rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: LasT; COG0565 296591010269 SpoU rRNA Methylase family; Region: SpoU_methylase; pfam00588 296591010270 Archaeal fructose-1,6-bisphosphatase and related enzymes of inositol monophosphatase family [Carbohydrate transport and metabolism]; Region: SuhB; COG0483 296591010271 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 296591010272 active site 296591010273 dimerization interface [polypeptide binding]; other site 296591010274 PAS fold; Region: PAS_4; pfam08448 296591010275 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 296591010276 dimer interface [polypeptide binding]; other site 296591010277 phosphorylation site [posttranslational modification] 296591010278 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 296591010279 ATP binding site [chemical binding]; other site 296591010280 Mg2+ binding site [ion binding]; other site 296591010281 G-X-G motif; other site 296591010282 Phosphopantetheine attachment site; Region: PP-binding; cl09936 296591010283 FabA/Z, beta-hydroxyacyl-acyl carrier protein (ACP)-dehydratases: One of several distinct enzyme types of the dissociative, type II, fatty acid synthase system (found in bacteria and plants) required to complete successive cycles of fatty acid elongation; Region: FabA_FabZ; cd00493 296591010284 active site 2 [active] 296591010285 dimer interface [polypeptide binding]; other site 296591010286 active site 1 [active] 296591010287 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: LABLAT-like; Region: LPLAT_LABLAT-like; cd07984 296591010288 putative acyl-acceptor binding pocket; other site 296591010289 Predicted exporter [General function prediction only]; Region: COG4258 296591010290 Predicted xylanase/chitin deacetylase [Carbohydrate transport and metabolism]; Region: CDA1; COG0726 296591010291 Catalytic NodB homology domain of rhizobial NodB-like proteins; Region: CE4_NodB_like_6s_7s; cd10917 296591010292 NodB motif; other site 296591010293 active site 296591010294 catalytic site [active] 296591010295 metal binding site [ion binding]; metal-binding site 296591010296 PAP2_like proteins, Aur1_like subfamily. Yeast Aur1p or Ipc1p is necessary for the addition of inositol phosphate to ceramide, an essential step in yeast sphingolipid synthesis, and is the target of several antifungal compounds such as aureobasidin; Region: PAP2_Aur1_like; cd03386 296591010297 active site 296591010298 Beta-ketoacyl synthase, N-terminal domain; Region: Ketoacyl-synt_2; pfam13723 296591010299 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 296591010300 putative active site 1 [active] 296591010301 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 296591010302 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591010303 NAD(P) binding site [chemical binding]; other site 296591010304 active site 296591010305 Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]; Region: UbiE; COG2226 296591010306 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 296591010307 S-adenosylmethionine binding site [chemical binding]; other site 296591010308 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 296591010309 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 296591010310 Ligand binding site; other site 296591010311 Putative Catalytic site; other site 296591010312 DXD motif; other site 296591010313 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 296591010314 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 296591010315 putative acyl-acceptor binding pocket; other site 296591010316 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 296591010317 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 296591010318 DNA phosphorothioation-associated DGQHR protein 1; Region: DGQHR_dnd_1; TIGR04172 296591010319 DGQHR domain; Region: DGQHR; TIGR03187 296591010320 MutS domain I; Region: MutS_I; pfam01624 296591010321 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 296591010322 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 296591010323 Walker A/P-loop; other site 296591010324 ATP binding site [chemical binding]; other site 296591010325 Q-loop/lid; other site 296591010326 ABC transporter signature motif; other site 296591010327 Walker B; other site 296591010328 D-loop; other site 296591010329 H-loop/switch region; other site 296591010330 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 296591010331 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 296591010332 Walker A/P-loop; other site 296591010333 ATP binding site [chemical binding]; other site 296591010334 Q-loop/lid; other site 296591010335 ABC transporter signature motif; other site 296591010336 Walker B; other site 296591010337 D-loop; other site 296591010338 H-loop/switch region; other site 296591010339 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 296591010340 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 296591010341 TM-ABC transporter signature motif; other site 296591010342 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 296591010343 TM-ABC transporter signature motif; other site 296591010344 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 296591010345 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_Arsenic_SBP_like; cd06330 296591010346 putative ligand binding site [chemical binding]; other site 296591010347 Uncharacterized enzyme involved in biosynthesis of extracellular polysaccharides [General function prediction only]; Region: COG2329 296591010348 Homoserine acetyltransferase [Amino acid transport and metabolism]; Region: MET2; COG2021 296591010349 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 296591010350 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 296591010351 6-hydroxyhexanoate dehydrogenase (HHD) catalyzes the oxidation of 6-hydroxyhexanoate to 6-oxohexanoate; Region: HHD; cd08191 296591010352 putative active site [active] 296591010353 metal binding site [ion binding]; metal-binding site 296591010354 Transcriptional regulators [Transcription]; Region: GntR; COG1802 296591010355 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591010356 DNA-binding site [nucleotide binding]; DNA binding site 296591010357 FCD domain; Region: FCD; pfam07729 296591010358 DNA-binding transcriptional repressor PuuR; Provisional; Region: PRK09943 296591010359 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 296591010360 non-specific DNA binding site [nucleotide binding]; other site 296591010361 salt bridge; other site 296591010362 sequence-specific DNA binding site [nucleotide binding]; other site 296591010363 Cupin domain; Region: Cupin_2; pfam07883 296591010364 allantoate amidohydrolase; Reviewed; Region: PRK12893 296591010365 M20 Peptidase beta-alanine synthase, an amidohydrolase; Region: M20_bAS; cd03884 296591010366 active site 296591010367 metal binding site [ion binding]; metal-binding site 296591010368 dimer interface [polypeptide binding]; other site 296591010369 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 296591010370 Amidase; Region: Amidase; cl11426 296591010371 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 296591010372 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 296591010373 Walker A/P-loop; other site 296591010374 ATP binding site [chemical binding]; other site 296591010375 Q-loop/lid; other site 296591010376 ABC transporter signature motif; other site 296591010377 Walker B; other site 296591010378 D-loop; other site 296591010379 H-loop/switch region; other site 296591010380 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 296591010381 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 296591010382 Walker A/P-loop; other site 296591010383 ATP binding site [chemical binding]; other site 296591010384 Q-loop/lid; other site 296591010385 ABC transporter signature motif; other site 296591010386 Walker B; other site 296591010387 D-loop; other site 296591010388 H-loop/switch region; other site 296591010389 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 296591010390 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 296591010391 TM-ABC transporter signature motif; other site 296591010392 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 296591010393 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 296591010394 TM-ABC transporter signature motif; other site 296591010395 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 296591010396 Type I periplasmic ligand-binding domain of ABC (Atpase Binding Cassette)-type active transport systems that are involved in the transport of all three branched chain aliphatic amino acids (leucine, isoleucine and valine); Region: PBP1_ABC_LIVBP_like; cd06342 296591010397 dimerization interface [polypeptide binding]; other site 296591010398 ligand binding site [chemical binding]; other site 296591010399 DNA mismatch repair protein MutS; Provisional; Region: PRK05399 296591010400 MutS domain I; Region: MutS_I; pfam01624 296591010401 MutS domain II; Region: MutS_II; pfam05188 296591010402 MutS domain III; Region: MutS_III; pfam05192 296591010403 MutS domain V; Region: MutS_V; pfam00488 296591010404 Walker A/P-loop; other site 296591010405 ATP binding site [chemical binding]; other site 296591010406 Q-loop/lid; other site 296591010407 ABC transporter signature motif; other site 296591010408 Walker B; other site 296591010409 D-loop; other site 296591010410 H-loop/switch region; other site 296591010411 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]; Region: COG3484 296591010412 Bacterial proteasome, beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that...; Region: proteasome_beta_bacterial; cd03765 296591010413 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 296591010414 Transposase; Region: DEDD_Tnp_IS110; pfam01548 296591010415 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 296591010416 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 296591010417 Transcriptional regulator [Transcription]; Region: IclR; COG1414 296591010418 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 296591010419 Bacterial transcriptional regulator; Region: IclR; pfam01614 296591010420 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 296591010421 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591010422 NAD(P) binding site [chemical binding]; other site 296591010423 active site 296591010424 ChrR Cupin-like domain; Region: Cupin_7; pfam12973 296591010425 undecaprenyl pyrophosphate phosphatase; Reviewed; Region: PRK00281 296591010426 Bacterial protein of unknown function (DUF924); Region: DUF924; pfam06041 296591010427 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591010428 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591010429 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 296591010430 putative dimerization interface [polypeptide binding]; other site 296591010431 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591010432 Predicted membrane protein [Function unknown]; Region: COG2259 296591010433 glutaminyl-tRNA synthetase; Provisional; Region: PRK05347 296591010434 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 296591010435 active site 296591010436 HIGH motif; other site 296591010437 nucleotide binding site [chemical binding]; other site 296591010438 catalytic core domain of glutaminyl-tRNA synthetase; Region: GlnRS_core; cd00807 296591010439 KMSKS motif; other site 296591010440 tRNA synthetases class I (E and Q), anti-codon binding domain; Region: tRNA-synt_1c_C; pfam03950 296591010441 D12 class N6 adenine-specific DNA methyltransferase; Region: MethyltransfD12; cl17344 296591010442 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 296591010443 dimerization interface [polypeptide binding]; other site 296591010444 putative DNA binding site [nucleotide binding]; other site 296591010445 putative Zn2+ binding site [ion binding]; other site 296591010446 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 296591010447 DNA-binding site [nucleotide binding]; DNA binding site 296591010448 RNA-binding motif; other site 296591010449 Excalibur calcium-binding domain; Region: Excalibur; pfam05901 296591010450 Restriction endonuclease; Region: Mrr_cat; pfam04471 296591010451 Zn-finger domain associated with topoisomerase type I [DNA replication, recombination, and repair]; Region: TopA; COG0551 296591010452 Topoisomerase DNA binding C4 zinc finger; Region: zf-C4_Topoisom; pfam01396 296591010453 acetyl-CoA synthetase; Provisional; Region: PRK00174 296591010454 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 296591010455 acyl-activating enzyme (AAE) consensus motif; other site 296591010456 AMP binding site [chemical binding]; other site 296591010457 active site 296591010458 CoA binding site [chemical binding]; other site 296591010459 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 296591010460 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cd02116 296591010461 Cysteine synthase [Amino acid transport and metabolism]; Region: CysK; COG0031 296591010462 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 296591010463 dimer interface [polypeptide binding]; other site 296591010464 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591010465 catalytic residue [active] 296591010466 Putative hydrophobic ligand-binding SRPBCC domain of the Hsp90 co-chaperone Aha1 and related proteins; Region: SRPBCC_Aha1; cd08892 296591010467 putative hydrophobic ligand binding site [chemical binding]; other site 296591010468 putative Hsp90 binding residues [polypeptide binding]; other site 296591010469 Protein of unknown function (DUF938); Region: DUF938; pfam06080 296591010470 SAM-dependent methyltransferases [Secondary metabolites biosynthesis, transport, and catabolism / General function prediction only]; Region: SmtA; COG0500 296591010471 Putative protein-S-isoprenylcysteine methyltransferase [Posttranslational modification, protein turnover, chaperones]; Region: STE14; COG2020 296591010472 Protein required for attachment to host cells; Region: Host_attach; pfam10116 296591010473 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 296591010474 Ligand Binding Site [chemical binding]; other site 296591010475 thioredoxin 2; Provisional; Region: PRK10996 296591010476 zinc-ribbon domain; Region: zinc_ribbon_5; cl11777 296591010477 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 296591010478 catalytic residues [active] 296591010479 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 296591010480 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591010481 DNA-binding site [nucleotide binding]; DNA binding site 296591010482 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 296591010483 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591010484 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 296591010485 active site 296591010486 Uncharacterized protein conserved in bacteria (DUF2242); Region: DUF2242; pfam10001 296591010487 Predicted transcriptional regulators [Transcription]; Region: COG1733 296591010488 HxlR-like helix-turn-helix; Region: HxlR; pfam01638 296591010489 Predicted amidohydrolase [General function prediction only]; Region: COG0388 296591010490 Nitrilases, cyanide hydratase (CH)s, and similar proteins (class 1 nitrilases); Region: nitrilases_CHs; cd07564 296591010491 putative active site [active] 296591010492 catalytic triad [active] 296591010493 putative dimer interface [polypeptide binding]; other site 296591010494 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 296591010495 FAD binding domain; Region: FAD_binding_4; pfam01565 296591010496 Berberine and berberine like; Region: BBE; pfam08031 296591010497 Ion channel; Region: Ion_trans_2; pfam07885 296591010498 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 296591010499 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 296591010500 Walker A/P-loop; other site 296591010501 ATP binding site [chemical binding]; other site 296591010502 Q-loop/lid; other site 296591010503 ABC transporter signature motif; other site 296591010504 Walker B; other site 296591010505 D-loop; other site 296591010506 H-loop/switch region; other site 296591010507 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 296591010508 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 296591010509 Walker A/P-loop; other site 296591010510 ATP binding site [chemical binding]; other site 296591010511 Q-loop/lid; other site 296591010512 ABC transporter signature motif; other site 296591010513 Walker B; other site 296591010514 D-loop; other site 296591010515 H-loop/switch region; other site 296591010516 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 296591010517 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 296591010518 TM-ABC transporter signature motif; other site 296591010519 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 296591010520 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 296591010521 TM-ABC transporter signature motif; other site 296591010522 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 296591010523 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 296591010524 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 296591010525 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 296591010526 FMN-binding pocket [chemical binding]; other site 296591010527 flavin binding motif; other site 296591010528 phosphate binding motif [ion binding]; other site 296591010529 beta-alpha-beta structure motif; other site 296591010530 NAD binding pocket [chemical binding]; other site 296591010531 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 296591010532 catalytic loop [active] 296591010533 iron binding site [ion binding]; other site 296591010534 Transcriptional regulators [Transcription]; Region: FadR; COG2186 296591010535 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591010536 DNA-binding site [nucleotide binding]; DNA binding site 296591010537 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 296591010538 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 296591010539 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; cl00938 296591010540 iron-sulfur cluster [ion binding]; other site 296591010541 [2Fe-2S] cluster binding site [ion binding]; other site 296591010542 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 296591010543 alpha subunit interface [polypeptide binding]; other site 296591010544 active site 296591010545 substrate binding site [chemical binding]; other site 296591010546 Fe binding site [ion binding]; other site 296591010547 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 296591010548 substrate binding site [chemical binding]; other site 296591010549 THF binding site; other site 296591010550 zinc-binding site [ion binding]; other site 296591010551 Ferritin-like superfamily of diiron-containing four-helix-bundle proteins; Region: Ferritin_like; cd00657 296591010552 dinuclear metal binding motif [ion binding]; other site 296591010553 RNA polymerase sigma factor; Provisional; Region: PRK11922 296591010554 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 296591010555 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 296591010556 DNA binding residues [nucleotide binding] 296591010557 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; cd00322 296591010558 FAD binding pocket [chemical binding]; other site 296591010559 conserved FAD binding motif [chemical binding]; other site 296591010560 phosphate binding motif [ion binding]; other site 296591010561 beta-alpha-beta structure motif; other site 296591010562 NAD binding pocket [chemical binding]; other site 296591010563 Acyl-CoA synthetases (AMP-forming)/AMP-acid ligases II [Lipid metabolism / Secondary metabolites biosynthesis, transport, and catabolism]; Region: CaiC; COG0318 296591010564 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 296591010565 acyl-activating enzyme (AAE) consensus motif; other site 296591010566 active site 296591010567 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 296591010568 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 296591010569 putative acyl-acceptor binding pocket; other site 296591010570 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 296591010571 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 296591010572 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 296591010573 Major Facilitator Superfamily; Region: MFS_1; pfam07690 296591010574 ribosome biogenesis GTP-binding protein YlqF; Region: GTPase_YlqF; TIGR03596 296591010575 Circularly permuted YlqF GTPase; Region: YlqF; cd01856 296591010576 GTP/Mg2+ binding site [chemical binding]; other site 296591010577 G4 box; other site 296591010578 G5 box; other site 296591010579 50S ribosome-binding GTPase; Region: MMR_HSR1; pfam01926 296591010580 G1 box; other site 296591010581 Switch I region; other site 296591010582 G2 box; other site 296591010583 G3 box; other site 296591010584 Switch II region; other site 296591010585 Oxidoreductase-like protein, N-terminal; Region: Oxidored-like; pfam09791 296591010586 Glutamate-cysteine ligase; Region: Glu_cys_ligase; cl17352 296591010587 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 296591010588 putative substrate translocation pore; other site 296591010589 oxalate/formate antiporter family transporter; Region: 2A0111; TIGR00890 296591010590 Phospholipase/Carboxylesterase; Region: Abhydrolase_2; pfam02230 296591010591 putative hydrolase; Provisional; Region: PRK11460 296591010592 TspO/MBR family; Region: TspO_MBR; pfam03073 296591010593 anaerobic nitric oxide reductase transcription regulator; Provisional; Region: PRK05022 296591010594 GAF domain; Region: GAF; pfam01590 296591010595 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 296591010596 Walker A motif; other site 296591010597 ATP binding site [chemical binding]; other site 296591010598 Walker B motif; other site 296591010599 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional; Region: PRK13289 296591010600 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 296591010601 heme-binding site [chemical binding]; other site 296591010602 FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The...; Region: flavohem_like_fad_nad_binding; cd06184 296591010603 FAD binding pocket [chemical binding]; other site 296591010604 FAD binding motif [chemical binding]; other site 296591010605 phosphate binding motif [ion binding]; other site 296591010606 beta-alpha-beta structure motif; other site 296591010607 NAD binding pocket [chemical binding]; other site 296591010608 Heme binding pocket [chemical binding]; other site 296591010609 Domain of unknown function (DUF1993); Region: DUF1993; pfam09351 296591010610 acetylornithine deacetylase; Provisional; Region: PRK07522 296591010611 M20 Peptidase acetylornithine deacetylase; Region: M20_ArgE; cd03894 296591010612 metal binding site [ion binding]; metal-binding site 296591010613 putative dimer interface [polypeptide binding]; other site 296591010614 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591010615 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591010616 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591010617 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 296591010618 putative effector binding pocket; other site 296591010619 dimerization interface [polypeptide binding]; other site 296591010620 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05557 296591010621 classical (c) SDRs; Region: SDR_c; cd05233 296591010622 NAD(P) binding site [chemical binding]; other site 296591010623 active site 296591010624 Uncharacterized protein, 4-oxalocrotonate tautomerase homolog [General function prediction only]; Region: COG1942 296591010625 active site 1 [active] 296591010626 dimer interface [polypeptide binding]; other site 296591010627 hexamer interface [polypeptide binding]; other site 296591010628 active site 2 [active] 296591010629 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 296591010630 Transcriptional regulators [Transcription]; Region: PurR; COG1609 296591010631 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 296591010632 DNA binding site [nucleotide binding] 296591010633 domain linker motif; other site 296591010634 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 296591010635 putative dimerization interface [polypeptide binding]; other site 296591010636 putative ligand binding site [chemical binding]; other site 296591010637 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 296591010638 5-dehydro-4-deoxyglucarate dehydratase, also called 5-keto-4-deoxy-glucarate dehydratase (KDGDH); Region: KDGDH; cd00951 296591010639 putative active site [active] 296591010640 catalytic residue [active] 296591010641 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591010642 glucarate dehydratase; Region: glucar-dehydr; TIGR03247 296591010643 D-Glucarate dehydratase (GlucD) catalyzes the dehydration of both D-glucarate and L-idarate to form 5-keto-4-deoxy-D-glucarate (5-KDG) , the initial reaction of the catabolic pathway for (D)-glucarate. GlucD belongs to the enolase superfamily of enzymes; Region: D-glucarate_dehydratase; cd03323 296591010644 active site 296591010645 tetramer interface [polypeptide binding]; other site 296591010646 Bacillus subtilis NADP+-dependent alpha-ketoglutaric semialdehyde dehydrogenase ycbD-like; Region: ALDH_KGSADH-YcbD; cd07097 296591010647 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 296591010648 NAD(P) binding site [chemical binding]; other site 296591010649 catalytic residues [active] 296591010650 Escherichia coli exonuclease III (ExoIII) and Neisseria meningitides NExo-like subfamily of the ExoIII family purinic/apyrimidinic (AP) endonucleases; Region: ExoIII-like_AP-endo; cd09086 296591010651 putative catalytic site [active] 296591010652 putative phosphate binding site [ion binding]; other site 296591010653 active site 296591010654 metal binding site A [ion binding]; metal-binding site 296591010655 DNA binding site [nucleotide binding] 296591010656 putative AP binding site [nucleotide binding]; other site 296591010657 putative metal binding site B [ion binding]; other site 296591010658 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 296591010659 tRNA-dihydrouridine synthase C; Provisional; Region: PRK10550 296591010660 FMN binding site [chemical binding]; other site 296591010661 active site 296591010662 catalytic residues [active] 296591010663 substrate binding site [chemical binding]; other site 296591010664 Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]; Region: HemK; COG2890 296591010665 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 296591010666 S-adenosylmethionine binding site [chemical binding]; other site 296591010667 efflux transporter, outer membrane factor (OMF) lipoprotein, NodT family; Region: outer_NodT; TIGR01845 296591010668 AcrB/AcrD/AcrF family; Region: ACR_tran; pfam00873 296591010669 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 296591010670 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 296591010671 HlyD family secretion protein; Region: HlyD_3; pfam13437 296591010672 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 296591010673 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591010674 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591010675 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 296591010676 putative effector binding pocket; other site 296591010677 putative dimerization interface [polypeptide binding]; other site 296591010678 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 296591010679 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 296591010680 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 296591010681 Coenzyme A binding pocket [chemical binding]; other site 296591010682 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 296591010683 catalytic loop [active] 296591010684 iron binding site [ion binding]; other site 296591010685 Sortase and related acyltransferases [Cell envelope biogenesis, outer membrane]; Region: COG1247 296591010686 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 296591010687 Coenzyme A binding pocket [chemical binding]; other site 296591010688 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591010689 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591010690 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 296591010691 dimerization interface [polypeptide binding]; other site 296591010692 Peptidase M14-like domain; uncharacterized subfamily; Region: M14-like_7; cd03862 296591010693 putative active site [active] 296591010694 Zn binding site [ion binding]; other site 296591010695 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 296591010696 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591010697 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 296591010698 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 296591010699 dimerization interface [polypeptide binding]; other site 296591010700 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591010701 Sulfatase; Region: Sulfatase; cl17466 296591010702 Arylsulfatase A and related enzymes [Inorganic ion transport and metabolism]; Region: AslA; COG3119 296591010703 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 296591010704 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591010705 DNA-binding site [nucleotide binding]; DNA binding site 296591010706 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 296591010707 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591010708 homodimer interface [polypeptide binding]; other site 296591010709 catalytic residue [active] 296591010710 Outer membrane protein [Cell envelope biogenesis, outer membrane / Intracellular trafficking and secretion]; Region: TolC; COG1538 296591010711 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 296591010712 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 296591010713 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 296591010714 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 296591010715 HlyD family secretion protein; Region: HlyD_3; pfam13437 296591010716 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 296591010717 short chain dehydrogenase; Provisional; Region: PRK06179 296591010718 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 296591010719 NADP binding site [chemical binding]; other site 296591010720 active site 296591010721 steroid binding site; other site 296591010722 Cytochrome c; Region: Cytochrom_C; cl11414 296591010723 Cytochrome c; Region: Cytochrom_C; cl11414 296591010724 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 296591010725 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 296591010726 Cytochrome c; Region: Cytochrom_C; pfam00034 296591010727 enterobactin exporter EntS; Provisional; Region: PRK10489 296591010728 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 296591010729 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 296591010730 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 296591010731 HlyD family secretion protein; Region: HlyD_3; pfam13437 296591010732 ABC-type multidrug transport system, ATPase component [Defense mechanisms]; Region: CcmA; COG1131 296591010733 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 296591010734 Walker A/P-loop; other site 296591010735 ATP binding site [chemical binding]; other site 296591010736 Q-loop/lid; other site 296591010737 ABC transporter signature motif; other site 296591010738 Walker B; other site 296591010739 D-loop; other site 296591010740 H-loop/switch region; other site 296591010741 ABC-type Na+ efflux pump, permease component [Energy production and conversion / Inorganic ion transport and metabolism]; Region: NatB; COG1668 296591010742 YhgE/Pip N-terminal domain; Region: pip_yhgE_Nterm; TIGR03061 296591010743 ABC-type multidrug transport system, permease component [Defense mechanisms]; Region: COG0842 296591010744 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 296591010745 NADH dehydrogenase, FAD-containing subunit [Energy production and conversion]; Region: Ndh; COG1252 296591010746 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 296591010747 Uncharacterized conserved protein (DUF2132); Region: DUF2132; pfam09905 296591010748 Pseudouridylate synthases, 23S RNA-specific [Translation, ribosomal structure and biogenesis]; Region: RluA; COG0564 296591010749 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 296591010750 active site 296591010751 Protocatechuate 3,4-dioxygenase (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 beta-subunit and an Fe3+ ion...; Region: 3,4-PCD; cd03459 296591010752 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 296591010753 Ligand Binding Site [chemical binding]; other site 296591010754 Domain of unknown function (DUF427); Region: DUF427; pfam04248 296591010755 Glycine zipper 2TM domain; Region: Rick_17kDa_Anti; cl10470 296591010756 Cupin domain; Region: Cupin_2; cl17218 296591010757 Protein of unknown function (DUF2855); Region: DUF2855; pfam11017 296591010758 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 296591010759 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 296591010760 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 296591010761 substrate binding site [chemical binding]; other site 296591010762 methionine synthase; Provisional; Region: PRK01207 296591010763 THF binding site; other site 296591010764 zinc-binding site [ion binding]; other site 296591010765 luciferase family oxidoreductase, group 1; Region: oxido_grp_1; TIGR03558 296591010766 probable oxidoreductase, LLM family; Region: LLM_2I7G; TIGR03858 296591010767 YaeQ protein; Region: YaeQ; pfam07152 296591010768 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK08314 296591010769 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 296591010770 Putative long-chain fatty acid CoA ligase; Region: LC_FACS_like; cd05935 296591010771 acyl-activating enzyme (AAE) consensus motif; other site 296591010772 putative AMP binding site [chemical binding]; other site 296591010773 putative active site [active] 296591010774 putative CoA binding site [chemical binding]; other site 296591010775 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591010776 Transcriptional regulators [Transcription]; Region: GntR; COG1802 296591010777 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591010778 DNA-binding site [nucleotide binding]; DNA binding site 296591010779 FCD domain; Region: FCD; pfam07729 296591010780 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 296591010781 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 296591010782 substrate binding pocket [chemical binding]; other site 296591010783 membrane-bound complex binding site; other site 296591010784 hinge residues; other site 296591010785 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 296591010786 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 296591010787 dimer interface [polypeptide binding]; other site 296591010788 conserved gate region; other site 296591010789 putative PBP binding loops; other site 296591010790 ABC-ATPase subunit interface; other site 296591010791 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 296591010792 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 296591010793 dimer interface [polypeptide binding]; other site 296591010794 conserved gate region; other site 296591010795 putative PBP binding loops; other site 296591010796 ABC-ATPase subunit interface; other site 296591010797 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 296591010798 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 296591010799 Walker A/P-loop; other site 296591010800 ATP binding site [chemical binding]; other site 296591010801 Q-loop/lid; other site 296591010802 ABC transporter signature motif; other site 296591010803 Walker B; other site 296591010804 D-loop; other site 296591010805 H-loop/switch region; other site 296591010806 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 296591010807 Helix-Turn-Helix DNA binding domain of the CadR and PbrR transcription regulators; Region: HTH_CadR-PbrR; cd04784 296591010808 Cd(II)/Pb(II)-responsive transcriptional regulator; Region: CadR-PbrR; TIGR02047 296591010809 DNA binding residues [nucleotide binding] 296591010810 dimer interface [polypeptide binding]; other site 296591010811 putative metal binding site [ion binding]; other site 296591010812 EamA-like transporter family; Region: EamA; pfam00892 296591010813 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 296591010814 EamA-like transporter family; Region: EamA; pfam00892 296591010815 Co/Zn/Cd efflux system component [Inorganic ion transport and metabolism]; Region: CzcD; COG1230 296591010816 Outer membrane efflux protein; Region: OEP; pfam02321 296591010817 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 296591010818 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 296591010819 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 296591010820 Heavy-metal resistance; Region: Metal_resist; pfam13801 296591010821 dimer interface [polypeptide binding]; other site 296591010822 Uncharacterized copper-binding protein [Inorganic ion transport and metabolism]; Region: COG4454 296591010823 Predicted metal-binding protein [General function prediction only]; Region: COG3019 296591010824 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 296591010825 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 296591010826 Putative silver efflux pump [Inorganic ion transport and metabolism]; Region: COG3696 296591010827 copper/silver efflux system membrane fusion protein CusB; Provisional; Region: PRK09783 296591010828 HlyD family secretion protein; Region: HlyD_3; pfam13437 296591010829 Copper binding periplasmic protein CusF; Region: CusF_Ec; pfam11604 296591010830 Outer membrane efflux protein; Region: OEP; pfam02321 296591010831 Outer membrane efflux protein; Region: OEP; pfam02321 296591010832 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 296591010833 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 296591010834 DNA binding residues [nucleotide binding] 296591010835 dimer interface [polypeptide binding]; other site 296591010836 copper binding site [ion binding]; other site 296591010837 Heavy-metal-associated domain (HMA) is a conserved domain of approximately 30 amino acid residues found in a number of proteins that transport or detoxify heavy metals, for example, the CPx-type heavy metal ATPases and copper chaperones. HMA domain...; Region: HMA; cl00207 296591010838 metal-binding site [ion binding] 296591010839 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 296591010840 metal-binding site [ion binding] 296591010841 Nitrogen regulatory protein P-II; Region: P-II; cl00412 296591010842 Nitrogen regulatory protein P-II; Region: P-II; smart00938 296591010843 Protein of unknown function (DUF2933); Region: DUF2933; pfam11666 296591010844 ubiquinol-cytochrome c reductase, iron-sulfur subunit; Region: Rieske_proteo; TIGR01416 296591010845 Iron-sulfur protein (ISP) component of the bc(1) complex family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. The bc(1) complex is a multisubunit enzyme found in many different organisms including...; Region: Rieske_cytochrome_bc1; cd03470 296591010846 [2Fe-2S] cluster binding site [ion binding]; other site 296591010847 Cytochrome c2 [Energy production and conversion]; Region: COG3474 296591010848 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 296591010849 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 296591010850 catalytic residues [active] 296591010851 Putative multicopper oxidases [Secondary metabolites biosynthesis, transport, and catabolism]; Region: SufI; COG2132 296591010852 Multicopper oxidase; Region: Cu-oxidase_3; pfam07732 296591010853 Multicopper oxidase; Region: Cu-oxidase; pfam00394 296591010854 Multicopper oxidase; Region: Cu-oxidase_2; pfam07731 296591010855 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 296591010856 dimerization domain [polypeptide binding]; other site 296591010857 dimer interface [polypeptide binding]; other site 296591010858 catalytic residues [active] 296591010859 thiol:disulfide interchange protein precursor; Provisional; Region: dipZ; PRK00293 296591010860 Disulphide bond corrector protein DsbC; Region: DsbC; pfam11412 296591010861 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 296591010862 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 296591010863 DsbD alpha interface [polypeptide binding]; other site 296591010864 catalytic residues [active] 296591010865 TRAP transporter solute receptor, TAXI family; Region: TRAP_TAXI; TIGR02122 296591010866 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 296591010867 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 296591010868 putative active site [active] 296591010869 heme pocket [chemical binding]; other site 296591010870 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 296591010871 putative active site [active] 296591010872 heme pocket [chemical binding]; other site 296591010873 PAS domain S-box; Region: sensory_box; TIGR00229 296591010874 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 296591010875 putative active site [active] 296591010876 heme pocket [chemical binding]; other site 296591010877 PAS domain S-box; Region: sensory_box; TIGR00229 296591010878 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 296591010879 putative active site [active] 296591010880 heme pocket [chemical binding]; other site 296591010881 PAS domain S-box; Region: sensory_box; TIGR00229 296591010882 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 296591010883 putative active site [active] 296591010884 heme pocket [chemical binding]; other site 296591010885 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: COG3920 296591010886 Histidine kinase; Region: HisKA_2; pfam07568 296591010887 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 296591010888 ATP binding site [chemical binding]; other site 296591010889 Mg2+ binding site [ion binding]; other site 296591010890 G-X-G motif; other site 296591010891 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 296591010892 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 296591010893 active site 296591010894 phosphorylation site [posttranslational modification] 296591010895 intermolecular recognition site; other site 296591010896 dimerization interface [polypeptide binding]; other site 296591010897 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 296591010898 PAS domain; Region: PAS_9; pfam13426 296591010899 putative active site [active] 296591010900 heme pocket [chemical binding]; other site 296591010901 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 296591010902 dimer interface [polypeptide binding]; other site 296591010903 phosphorylation site [posttranslational modification] 296591010904 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 296591010905 ATP binding site [chemical binding]; other site 296591010906 Mg2+ binding site [ion binding]; other site 296591010907 G-X-G motif; other site 296591010908 Response regulator receiver domain; Region: Response_reg; pfam00072 296591010909 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 296591010910 active site 296591010911 phosphorylation site [posttranslational modification] 296591010912 intermolecular recognition site; other site 296591010913 dimerization interface [polypeptide binding]; other site 296591010914 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 296591010915 dimer interface [polypeptide binding]; other site 296591010916 phosphorylation site [posttranslational modification] 296591010917 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 296591010918 ATP binding site [chemical binding]; other site 296591010919 Mg2+ binding site [ion binding]; other site 296591010920 G-X-G motif; other site 296591010921 Response regulator receiver domain; Region: Response_reg; pfam00072 296591010922 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 296591010923 active site 296591010924 phosphorylation site [posttranslational modification] 296591010925 intermolecular recognition site; other site 296591010926 dimerization interface [polypeptide binding]; other site 296591010927 Response regulator receiver domain; Region: Response_reg; pfam00072 296591010928 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 296591010929 active site 296591010930 phosphorylation site [posttranslational modification] 296591010931 intermolecular recognition site; other site 296591010932 dimerization interface [polypeptide binding]; other site 296591010933 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 296591010934 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591010935 The C-terminal substrate binding domain of galactose-binding protein regulator contains the type 2 periplasmic binding fold; Region: PBP2_GbpR; cd08435 296591010936 putative dimerization interface [polypeptide binding]; other site 296591010937 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 296591010938 Human rTS beta is encoded by the rTS gene which, through alternative RNA splicing, also encodes rTS alpha whose mRNA is complementary to thymidylate synthase mRNA. rTS beta expression is associated with the production of small molecules that appear to...; Region: rTSbeta_L-fuconate_dehydratase; cd03324 296591010939 putative active site pocket [active] 296591010940 metal binding site [ion binding]; metal-binding site 296591010941 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591010942 Domain of unknown function (DUF4382); Region: DUF4382; pfam14321 296591010943 Protein of unknown function (DUF1415); Region: DUF1415; pfam07209 296591010944 putative ABC transporter ATP-binding protein; Reviewed; Region: PRK11819 296591010945 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 296591010946 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 296591010947 ABC transporter; Region: ABC_tran_2; pfam12848 296591010948 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 296591010949 helicase 45; Provisional; Region: PTZ00424 296591010950 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 296591010951 ATP binding site [chemical binding]; other site 296591010952 Mg++ binding site [ion binding]; other site 296591010953 motif III; other site 296591010954 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 296591010955 nucleotide binding region [chemical binding]; other site 296591010956 ATP-binding site [chemical binding]; other site 296591010957 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591010958 NAD(P) binding site [chemical binding]; other site 296591010959 active site 296591010960 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 296591010961 L-idonate 5-dehydrogenase; Region: idonate-5-DH; cd08232 296591010962 L-idonate 5-dehydrogenase; Provisional; Region: PRK09880 296591010963 putative NAD(P) binding site [chemical binding]; other site 296591010964 catalytic Zn binding site [ion binding]; other site 296591010965 gluconate 5-dehydrogenase; Provisional; Region: PRK07523 296591010966 gluconate 5-dehydrogenase (Ga5DH)-like, classical (c) SDRs; Region: Ga5DH-like_SDR_c; cd05347 296591010967 NADP binding site [chemical binding]; other site 296591010968 homodimer interface [polypeptide binding]; other site 296591010969 active site 296591010970 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 296591010971 AAA domain; Region: AAA_33; pfam13671 296591010972 ATP-binding site [chemical binding]; other site 296591010973 Gluconate-6-phosphate binding site [chemical binding]; other site 296591010974 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 296591010975 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 296591010976 Walker A/P-loop; other site 296591010977 ATP binding site [chemical binding]; other site 296591010978 Q-loop/lid; other site 296591010979 ABC transporter signature motif; other site 296591010980 Walker B; other site 296591010981 D-loop; other site 296591010982 H-loop/switch region; other site 296591010983 TOBE domain; Region: TOBE_2; pfam08402 296591010984 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 296591010985 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 296591010986 dimer interface [polypeptide binding]; other site 296591010987 conserved gate region; other site 296591010988 putative PBP binding loops; other site 296591010989 ABC-ATPase subunit interface; other site 296591010990 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 296591010991 dimer interface [polypeptide binding]; other site 296591010992 conserved gate region; other site 296591010993 putative PBP binding loops; other site 296591010994 ABC-ATPase subunit interface; other site 296591010995 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 296591010996 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 296591010997 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 296591010998 Transcriptional regulators [Transcription]; Region: FadR; COG2186 296591010999 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591011000 DNA-binding site [nucleotide binding]; DNA binding site 296591011001 FCD domain; Region: FCD; pfam07729 296591011002 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 296591011003 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 296591011004 putative ligand binding site [chemical binding]; other site 296591011005 NAD binding site [chemical binding]; other site 296591011006 catalytic site [active] 296591011007 dihydroxy-acid dehydratase; Validated; Region: PRK06131 296591011008 2-keto-3-deoxy-galactonokinase [Carbohydrate transport and metabolism]; Region: DgoK; COG3734 296591011009 2-keto-3-deoxy-galactonokinase; Region: DGOK; pfam05035 296591011010 2-dehydro-3-deoxy-6-phosphogalactonate aldolase; Reviewed; Region: PRK09140 296591011011 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 296591011012 active site 296591011013 intersubunit interface [polypeptide binding]; other site 296591011014 catalytic residue [active] 296591011015 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK07231 296591011016 classical (c) SDRs; Region: SDR_c; cd05233 296591011017 NAD(P) binding site [chemical binding]; other site 296591011018 active site 296591011019 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 296591011020 FOG: CBS domain [General function prediction only]; Region: COG0517 296591011021 Methyladenine glycosylase; Region: Adenine_glyco; pfam03352 296591011022 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 296591011023 Mycobacterium tuberculosis CorA-like subfamily; Region: MtCorA-like; cd12830 296591011024 oligomer interface [polypeptide binding]; other site 296591011025 metal binding site [ion binding]; metal-binding site 296591011026 metal binding site [ion binding]; metal-binding site 296591011027 putative Cl binding site [ion binding]; other site 296591011028 basic sphincter; other site 296591011029 hydrophobic gate; other site 296591011030 periplasmic entrance; other site 296591011031 Uncharacterized subfamily of the multidrug and toxic compound extrusion (MATE) proteins; Region: MATE_like_3; cd13148 296591011032 Na+-driven multidrug efflux pump [Defense mechanisms]; Region: NorM; COG0534 296591011033 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 296591011034 putative active site [active] 296591011035 putative catalytic site [active] 296591011036 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 296591011037 putative substrate translocation pore; other site 296591011038 Major Facilitator Superfamily; Region: MFS_1; pfam07690 296591011039 Transcriptional regulators [Transcription]; Region: MarR; COG1846 296591011040 MarR family; Region: MarR_2; pfam12802 296591011041 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 296591011042 CoenzymeA binding site [chemical binding]; other site 296591011043 subunit interaction site [polypeptide binding]; other site 296591011044 PHB binding site; other site 296591011045 Membrane protease subunits, stomatin/prohibitin homologs [Posttranslational modification, protein turnover, chaperones]; Region: HflC; COG0330 296591011046 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 296591011047 Nodulation formation efficiency D (NfeD) is a membrane-bound ClpP-class protease; Region: Clp_protease_NfeD_1; cd07020 296591011048 Membrane-bound serine protease (ClpP class) [Posttranslational modification, protein turnover, chaperones]; Region: NfeD; COG1030 296591011049 active site residues [active] 296591011050 dimer interface [polypeptide binding]; other site 296591011051 NfeD-like C-terminal, partner-binding; Region: NfeD; pfam01957 296591011052 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 296591011053 Glyoxalase I catalyzes the isomerization of the hemithioacetal, formed by a 2-oxoaldehyde and glutathione, to S-D-lactoylglutathione; Region: Glyoxalase_I; cd07233 296591011054 dimer interface [polypeptide binding]; other site 296591011055 active site 296591011056 metal binding site [ion binding]; metal-binding site 296591011057 glutathione binding site [chemical binding]; other site 296591011058 keto-hydroxyglutarate-aldolase/keto-deoxy- phosphogluconate aldolase; Provisional; Region: PRK05718 296591011059 KDPG and KHG aldolase; Region: KDPG_aldolase; cd00452 296591011060 active site 296591011061 intersubunit interface [polypeptide binding]; other site 296591011062 catalytic residue [active] 296591011063 phosphogluconate dehydratase; Validated; Region: PRK09054 296591011064 6-phosphogluconate dehydratase; Region: edd; TIGR01196 296591011065 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 296591011066 ligand binding site [chemical binding]; other site 296591011067 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 296591011068 putative active site pocket [active] 296591011069 dimerization interface [polypeptide binding]; other site 296591011070 putative catalytic residue [active] 296591011071 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 296591011072 E-class dimer interface [polypeptide binding]; other site 296591011073 P-class dimer interface [polypeptide binding]; other site 296591011074 active site 296591011075 Cu2+ binding site [ion binding]; other site 296591011076 Zn2+ binding site [ion binding]; other site 296591011077 molybdopterin-guanine dinucleotide biosynthesis protein MobA; Reviewed; Region: mobA; PRK00317 296591011078 GT_2_like_f is a subfamily of the glycosyltransferase family 2 (GT-2) with unknown function; Region: GT_2_like_f; cd04182 296591011079 Ligand binding site; other site 296591011080 metal-binding site 296591011081 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 296591011082 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 296591011083 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 296591011084 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 296591011085 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 296591011086 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 296591011087 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 296591011088 catalytic loop [active] 296591011089 iron binding site [ion binding]; other site 296591011090 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 296591011091 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 296591011092 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 296591011093 pyridoxamine-phosphate oxidase; Region: pdxH; TIGR00558 296591011094 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 296591011095 Pyridoxine 5'-phosphate oxidase C-terminal dimerisation region; Region: PNPOx_C; pfam10590 296591011096 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 296591011097 catalytic center binding site [active] 296591011098 ATP binding site [chemical binding]; other site 296591011099 poly(A) polymerase; Region: pcnB; TIGR01942 296591011100 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 296591011101 active site 296591011102 NTP binding site [chemical binding]; other site 296591011103 metal binding triad [ion binding]; metal-binding site 296591011104 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 296591011105 Polymerase A arginine-rich C-terminus; Region: PolyA_pol_arg_C; pfam12626 296591011106 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 296591011107 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 296591011108 Protein of unknown function (DUF3620); Region: DUF3620; pfam12281 296591011109 ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]; Region: DnaA; COG0593 296591011110 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 296591011111 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 296591011112 Walker A motif; other site 296591011113 ATP binding site [chemical binding]; other site 296591011114 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 296591011115 Domain of unknown function DUF20; Region: UPF0118; pfam01594 296591011116 phosphoribosylaminoimidazole synthetase; Provisional; Region: PRK05385 296591011117 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 296591011118 dimerization interface [polypeptide binding]; other site 296591011119 putative ATP binding site [chemical binding]; other site 296591011120 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 296591011121 Major Facilitator Superfamily; Region: MFS_1; pfam07690 296591011122 putative substrate translocation pore; other site 296591011123 Uncharacterized conserved protein [Function unknown]; Region: COG2912 296591011124 Transglutaminase-like superfamily; Region: Transglut_core2; pfam13369 296591011125 MurJ/MviN, a subfamily of the multidrug and toxic compound extrusion (MATE)-like proteins; Region: MATE_MurJ_like; cd13123 296591011126 MviN-like protein; Region: MVIN; pfam03023 296591011127 30S ribosomal protein S20; Reviewed; Region: rpsT; PRK00239 296591011128 Protein of unknown function (DUF3579); Region: DUF3579; pfam12112 296591011129 acetylornithine aminotransferase; Provisional; Region: PRK02627 296591011130 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 296591011131 inhibitor-cofactor binding pocket; inhibition site 296591011132 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591011133 catalytic residue [active] 296591011134 ornithine carbamoyltransferase; Provisional; Region: PRK00779 296591011135 Aspartate/ornithine carbamoyltransferase, carbamoyl-P binding domain; Region: OTCace_N; pfam02729 296591011136 Aspartate/ornithine carbamoyltransferase, Asp/Orn binding domain; Region: OTCace; pfam00185 296591011137 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 296591011138 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591011139 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 296591011140 dimerization interface [polypeptide binding]; other site 296591011141 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591011142 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 296591011143 galactarate dehydratase; Region: galactar-dH20; TIGR03248 296591011144 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 296591011145 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 296591011146 Solute carrier families 5 and 6-like; solute binding domain; Region: SLC5-6-like_sbd; cl00456 296591011147 Permease for cytosine/purines, uracil, thiamine, allantoin; Region: Transp_cyt_pur; pfam02133 296591011148 Na binding site [ion binding]; other site 296591011149 Winged helix-turn helix; Region: HTH_29; pfam13551 296591011150 putative transposase OrfB; Reviewed; Region: PHA02517 296591011151 HTH-like domain; Region: HTH_21; pfam13276 296591011152 Integrase core domain; Region: rve; pfam00665 296591011153 Integrase core domain; Region: rve_3; pfam13683 296591011154 Homeodomain-like domain; Region: HTH_23; pfam13384 296591011155 Winged helix-turn helix; Region: HTH_29; pfam13551 296591011156 Winged helix-turn helix; Region: HTH_33; pfam13592 296591011157 DDE superfamily endonuclease; Region: DDE_3; pfam13358 296591011158 classical (c) SDRs; Region: SDR_c; cd05233 296591011159 NAD(P) binding site [chemical binding]; other site 296591011160 active site 296591011161 Putative cyclase; Region: Cyclase; cl00814 296591011162 Kynureninase [Amino acid transport and metabolism]; Region: COG3844 296591011163 kynureninase; Region: kynureninase; TIGR01814 296591011164 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 296591011165 catalytic residue [active] 296591011166 tryptophan 2,3-dioxygenase; Region: trp_2_3_diox; TIGR03036 296591011167 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 296591011168 salicylate hydroxylase; Provisional; Region: PRK08163 296591011169 aconitate hydratase; Provisional; Region: acnA; PRK12881 296591011170 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 296591011171 substrate binding site [chemical binding]; other site 296591011172 Aconitase catalytic domain; Aconitase catalyzes the reversible isomerization of citrate and isocitrate as part of the TCA cycle; Region: Aconitase; cl00285 296591011173 ligand binding site [chemical binding]; other site 296591011174 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 296591011175 substrate binding site [chemical binding]; other site 296591011176 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 296591011177 sequence-specific DNA binding site [nucleotide binding]; other site 296591011178 salt bridge; other site 296591011179 bifunctional aconitate hydratase 2/2-methylisocitrate dehydratase; Validated; Region: PRK09238 296591011180 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 296591011181 substrate binding site [chemical binding]; other site 296591011182 Aconitate hydratase B catalyses the formation of cis-aconitate from citrate as part of the TCA cycle; Region: AcnB; cd01581 296591011183 substrate binding site [chemical binding]; other site 296591011184 ligand binding site [chemical binding]; other site 296591011185 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 296591011186 malate dehydrogenase; Provisional; Region: PRK05442 296591011187 Chloroplast-like malate dehydrogenases; Region: MDH_choloroplast_like; cd01338 296591011188 NAD(P) binding site [chemical binding]; other site 296591011189 dimer interface [polypeptide binding]; other site 296591011190 malate binding site [chemical binding]; other site 296591011191 Transcriptional regulators [Transcription]; Region: PhnF; COG2188 296591011192 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591011193 DNA-binding site [nucleotide binding]; DNA binding site 296591011194 The UbiC transcription regulator-associated (UTRA) domain is a conserved ligand-binding domain; Region: UTRA; smart00866 296591011195 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 296591011196 Iron-sulfur protein interface; other site 296591011197 proximal quinone binding site [chemical binding]; other site 296591011198 SdhD (CybS) interface [polypeptide binding]; other site 296591011199 proximal heme binding site [chemical binding]; other site 296591011200 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 296591011201 SdhC subunit interface [polypeptide binding]; other site 296591011202 proximal heme binding site [chemical binding]; other site 296591011203 cardiolipin binding site; other site 296591011204 Iron-sulfur protein interface; other site 296591011205 proximal quinone binding site [chemical binding]; other site 296591011206 succinate dehydrogenase flavoprotein subunit; Reviewed; Region: sdhA; PRK07057 296591011207 L-aspartate oxidase; Provisional; Region: PRK06175 296591011208 Fumarate reductase flavoprotein C-term; Region: Succ_DH_flav_C; pfam02910 296591011209 succinate dehydrogenase iron-sulfur subunit; Reviewed; Region: sdhB; PRK05950 296591011210 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_3; pfam13085 296591011211 Flavinator of succinate dehydrogenase; Region: Sdh5; pfam03937 296591011212 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 296591011213 Citrate synthase [Energy production and conversion]; Region: GltA; COG0372 296591011214 dimer interface [polypeptide binding]; other site 296591011215 active site 296591011216 citrylCoA binding site [chemical binding]; other site 296591011217 NADH binding [chemical binding]; other site 296591011218 cationic pore residues; other site 296591011219 oxalacetate/citrate binding site [chemical binding]; other site 296591011220 coenzyme A binding site [chemical binding]; other site 296591011221 catalytic triad [active] 296591011222 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591011223 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591011224 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 296591011225 putative dimerization interface [polypeptide binding]; other site 296591011226 3-isopropylmalate dehydratase large subunit; Reviewed; Region: PRK00402 296591011227 3-isopropylmalate dehydratase catalyzes the isomerization between 2-isopropylmalate and 3-isopropylmalate; Region: IPMI; cd01583 296591011228 substrate binding site [chemical binding]; other site 296591011229 ligand binding site [chemical binding]; other site 296591011230 isopropylmalate isomerase small subunit; Provisional; Region: leuD; PRK01641 296591011231 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 296591011232 substrate binding site [chemical binding]; other site 296591011233 3-isopropylmalate dehydrogenase; Provisional; Region: PRK00772 296591011234 tartrate dehydrogenase; Region: TTC; TIGR02089 296591011235 aspartate-semialdehyde dehydrogenase; Reviewed; Region: PRK06598 296591011236 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 296591011237 FimV N-terminal domain; Region: FimV_core; TIGR03505 296591011238 FimV C-terminal domain; Region: FimV_Cterm; TIGR03504 296591011239 tRNA pseudouridine synthase A; Validated; Region: truA; PRK00021 296591011240 Eukaryotic and bacterial pseudouridine synthases similar to E. coli TruA; Region: PseudoU_synth_EcTruA; cd02570 296591011241 dimerization interface 3.5A [polypeptide binding]; other site 296591011242 active site 296591011243 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 296591011244 active site 296591011245 tryptophan synthase, beta subunit; Region: trpB; TIGR00263 296591011246 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 296591011247 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591011248 catalytic residue [active] 296591011249 tryptophan synthase alpha subunit; Provisional; Region: trpA; CHL00200 296591011250 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 296591011251 substrate binding site [chemical binding]; other site 296591011252 active site 296591011253 catalytic residues [active] 296591011254 heterodimer interface [polypeptide binding]; other site 296591011255 acetyl-CoA carboxylase subunit beta; Validated; Region: PRK05654 296591011256 malonate decarboxylase subunit beta; Reviewed; Region: PRK07189; cl17682 296591011257 ATP-dependent protease La (LON) domain; Region: LON; pfam02190 296591011258 lysyl-tRNA synthetase; Reviewed; Region: lysS; PRK00484 296591011259 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 296591011260 dimer interface [polypeptide binding]; other site 296591011261 putative anticodon binding site; other site 296591011262 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 296591011263 motif 1; other site 296591011264 active site 296591011265 motif 2; other site 296591011266 motif 3; other site 296591011267 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 296591011268 Patatin-like phospholipase; Region: Patatin; pfam01734 296591011269 active site 296591011270 nucleophile elbow; other site 296591011271 Predicted metal-dependent hydrolase [General function prediction only]; Region: COG1451 296591011272 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 296591011273 dimer interface [polypeptide binding]; other site 296591011274 conserved gate region; other site 296591011275 putative PBP binding loops; other site 296591011276 ABC-ATPase subunit interface; other site 296591011277 ABC-type proline/glycine betaine transport systems, ATPase components [Amino acid transport and metabolism]; Region: OpuBA; COG1125 296591011278 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 296591011279 Walker A/P-loop; other site 296591011280 ATP binding site [chemical binding]; other site 296591011281 Q-loop/lid; other site 296591011282 ABC transporter signature motif; other site 296591011283 Walker B; other site 296591011284 D-loop; other site 296591011285 H-loop/switch region; other site 296591011286 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 296591011287 dimer interface [polypeptide binding]; other site 296591011288 conserved gate region; other site 296591011289 ABC-ATPase subunit interface; other site 296591011290 putative transposase OrfB; Reviewed; Region: PHA02517 296591011291 HTH-like domain; Region: HTH_21; pfam13276 296591011292 Integrase core domain; Region: rve; pfam00665 296591011293 Integrase core domain; Region: rve_3; pfam13683 296591011294 Winged helix-turn helix; Region: HTH_29; pfam13551 296591011295 Periplasmic glycine betaine/choline-binding (lipo)protein of an ABC-type transport system (osmoprotectant binding protein) [Cell envelope biogenesis, outer membrane]; Region: OpuBC; COG1732 296591011296 Beta-glucosidase-related glycosidases [Carbohydrate transport and metabolism]; Region: BglX; COG1472 296591011297 beta-hexosaminidase; Provisional; Region: PRK05337 296591011298 4'-phosphopantetheinyl transferase; Provisional; Region: acpS; PRK00070 296591011299 pyridoxine 5'-phosphate synthase; Provisional; Region: PRK05265 296591011300 active site 296591011301 hydrophilic channel; other site 296591011302 dimerization interface [polypeptide binding]; other site 296591011303 catalytic residues [active] 296591011304 active site lid [active] 296591011305 Recombination protein O N terminal; Region: RecO_N; pfam11967 296591011306 DNA repair protein RecO; Reviewed; Region: recO; PRK00085 296591011307 Recombination protein O C terminal; Region: RecO_C; pfam02565 296591011308 GTPase Era; Reviewed; Region: era; PRK00089 296591011309 E. coli Ras-like protein (Era) is a multifunctional GTPase; Region: Era; cd04163 296591011310 G1 box; other site 296591011311 GTP/Mg2+ binding site [chemical binding]; other site 296591011312 Switch I region; other site 296591011313 G2 box; other site 296591011314 Switch II region; other site 296591011315 G3 box; other site 296591011316 G4 box; other site 296591011317 G5 box; other site 296591011318 KH domain; Region: KH_2; pfam07650 296591011319 ribonuclease III; Reviewed; Region: rnc; PRK00102 296591011320 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 296591011321 dimerization interface [polypeptide binding]; other site 296591011322 active site 296591011323 metal binding site [ion binding]; metal-binding site 296591011324 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 296591011325 dsRNA binding site [nucleotide binding]; other site 296591011326 signal peptidase I; Provisional; Region: PRK10861 296591011327 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 296591011328 Catalytic site [active] 296591011329 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 296591011330 GTP-binding protein LepA; Provisional; Region: PRK05433 296591011331 LepA also known as Elongation Factor 4 (EF4); Region: LepA; cd01890 296591011332 G1 box; other site 296591011333 putative GEF interaction site [polypeptide binding]; other site 296591011334 GTP/Mg2+ binding site [chemical binding]; other site 296591011335 Switch I region; other site 296591011336 G2 box; other site 296591011337 G3 box; other site 296591011338 Switch II region; other site 296591011339 G4 box; other site 296591011340 G5 box; other site 296591011341 Translation_Factor_II_like: Elongation factor Tu (EF-Tu) domain II-like proteins. Elongation factor Tu consists of three structural domains, this family represents the second domain. Domain II adopts a beta barrel structure and is involved in binding to...; Region: Translation_Factor_II_like; cl02787 296591011342 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 296591011343 GTP-binding protein LepA C-terminus; Region: LepA_C; pfam06421 296591011344 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 296591011345 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 296591011346 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 296591011347 protein binding site [polypeptide binding]; other site 296591011348 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; cl00117 296591011349 protein binding site [polypeptide binding]; other site 296591011350 MucB/RseB family; Region: MucB_RseB; pfam03888 296591011351 anti-sigma E factor; Provisional; Region: rseB; PRK09455 296591011352 Negative regulator of sigma E activity [Signal transduction mechanisms]; Region: RseA; COG3073 296591011353 Anti sigma-E protein RseA, N-terminal domain; Region: RseA_N; pfam03872 296591011354 RNA polymerase sigma factor RpoE; Provisional; Region: PRK09652 296591011355 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 296591011356 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 296591011357 DNA binding residues [nucleotide binding] 296591011358 beta-ketoacyl-acyl-carrier-protein synthase II; Region: fabF; TIGR03150 296591011359 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 296591011360 dimer interface [polypeptide binding]; other site 296591011361 active site 296591011362 acyl carrier protein; Provisional; Region: acpP; PRK00982 296591011363 beta-Keto acyl carrier protein reductase (BKR), involved in Type II FAS, classical (c) SDRs; Region: BKR_SDR_c; cd05333 296591011364 3-oxoacyl-(acyl-carrier-protein) reductase; Region: 3oxo_ACP_reduc; TIGR01830 296591011365 NAD(P) binding site [chemical binding]; other site 296591011366 homotetramer interface [polypeptide binding]; other site 296591011367 homodimer interface [polypeptide binding]; other site 296591011368 active site 296591011369 (acyl-carrier-protein) S-malonyltransferase [Lipid metabolism]; Region: FabD; COG0331 296591011370 malonyl CoA-acyl carrier protein transacylase; Region: fabD; TIGR00128 296591011371 3-oxoacyl-(acyl carrier protein) synthase III; Reviewed; Region: PRK09352 296591011372 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 296591011373 dimer interface [polypeptide binding]; other site 296591011374 active site 296591011375 CoA binding pocket [chemical binding]; other site 296591011376 putative phosphate acyltransferase; Provisional; Region: PRK05331 296591011377 50S ribosomal protein L32; Validated; Region: rpmF; PRK01110 296591011378 Uncharacterized ACR, COG1399; Region: DUF177; cl00616 296591011379 Maf-like protein; Region: Maf; pfam02545 296591011380 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 296591011381 active site 296591011382 dimer interface [polypeptide binding]; other site 296591011383 Uncharacterized subfamily of the tetrapyrrole methylase family similar to ribosomal RNA small subunit methyltransferase I (RsmI); Region: RsmI_like; cd11649 296591011384 putative SAM binding site [chemical binding]; other site 296591011385 homodimer interface [polypeptide binding]; other site 296591011386 signal peptide peptidase SppA, 36K type; Region: SppA_dom; TIGR00706 296591011387 Signal peptide peptidase A (SppA), a serine protease, has catalytic Ser-Lys dyad; Region: S49_Sppa_N_C; cd07023 296591011388 tandem repeat interface [polypeptide binding]; other site 296591011389 oligomer interface [polypeptide binding]; other site 296591011390 active site residues [active] 296591011391 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; cl00938 296591011392 iron-sulfur cluster [ion binding]; other site 296591011393 [2Fe-2S] cluster binding site [ion binding]; other site 296591011394 Predicted phosphatases [General function prediction only]; Region: Gph; COG0546 296591011395 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 296591011396 motif II; other site 296591011397 23S rRNA pseudouridylate synthase C; Provisional; Region: PRK11025 296591011398 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 296591011399 RNA binding surface [nucleotide binding]; other site 296591011400 Pseudouridine synthase, RsuA/RluD family; Region: PseudoU_synth_RluCD_like; cd02869 296591011401 active site 296591011402 Ribonucleases G and E [Translation, ribosomal structure and biogenesis]; Region: CafA; COG1530 296591011403 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 296591011404 homodimer interface [polypeptide binding]; other site 296591011405 oligonucleotide binding site [chemical binding]; other site 296591011406 heme biosynthesis-associated TPR protein; Region: TPR_hemY_coli; TIGR00540 296591011407 HemY protein N-terminus; Region: HemY_N; pfam07219 296591011408 porphobilinogen deaminase; Reviewed; Region: hemC; PRK00072 296591011409 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 296591011410 domain interfaces; other site 296591011411 active site 296591011412 phosphoenolpyruvate carboxylase; Reviewed; Region: PRK00009 296591011413 Phosphoenolpyruvate carboxylase [Energy production and conversion]; Region: Ppc; COG2352 296591011414 Protein of unknown function (DUF3131); Region: DUF3131; pfam11329 296591011415 Putative glucoamylase; Region: Glycoamylase; pfam10091 296591011416 Second GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_2_like; cd11753 296591011417 Cellobiose phosphorylase [Carbohydrate transport and metabolism]; Region: COG3459 296591011418 First GH94N domain of cyclic beta 1-2 glucan synthetase and similar domains; Region: GH94N_ChvB_NdvB_1_like; cd11756 296591011419 Membrane protein TerC, possibly involved in tellurium resistance [Inorganic ion transport and metabolism]; Region: TerC; COG0861 296591011420 Predicted permease, member of the PurR regulon [General function prediction only]; Region: yhhT; COG0628 296591011421 Domain of unknown function DUF20; Region: UPF0118; pfam01594 296591011422 Response regulator of the LytR/AlgR family [Transcription / Signal transduction mechanisms]; Region: LytT; COG3279 296591011423 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 296591011424 active site 296591011425 phosphorylation site [posttranslational modification] 296591011426 intermolecular recognition site; other site 296591011427 dimerization interface [polypeptide binding]; other site 296591011428 LytTr DNA-binding domain; Region: LytTR; smart00850 296591011429 Histidine kinase; Region: His_kinase; pfam06580 296591011430 Histidine kinase-, DNA gyrase B-, and HSP90-like ATPase; Region: HATPase_c; pfam02518 296591011431 ATP binding site [chemical binding]; other site 296591011432 Mg2+ binding site [ion binding]; other site 296591011433 G-X-G motif; other site 296591011434 argininosuccinate lyase; Provisional; Region: PRK00855 296591011435 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 296591011436 active sites [active] 296591011437 tetramer interface [polypeptide binding]; other site 296591011438 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 296591011439 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 296591011440 active site 296591011441 phosphorylation site [posttranslational modification] 296591011442 intermolecular recognition site; other site 296591011443 dimerization interface [polypeptide binding]; other site 296591011444 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 296591011445 DNA binding site [nucleotide binding] 296591011446 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 296591011447 dimer interface [polypeptide binding]; other site 296591011448 phosphorylation site [posttranslational modification] 296591011449 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 296591011450 ATP binding site [chemical binding]; other site 296591011451 Mg2+ binding site [ion binding]; other site 296591011452 G-X-G motif; other site 296591011453 periplasmic serine protease, Do/DeqQ family; Region: degP_htrA_DO; TIGR02037 296591011454 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 296591011455 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 296591011456 protein binding site [polypeptide binding]; other site 296591011457 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 296591011458 protein binding site [polypeptide binding]; other site 296591011459 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 296591011460 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 296591011461 substrate binding site [chemical binding]; other site 296591011462 oxyanion hole (OAH) forming residues; other site 296591011463 trimer interface [polypeptide binding]; other site 296591011464 L-lactate dehydrogenase; Provisional; Region: lldD; PRK11197 296591011465 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 296591011466 active site 296591011467 substrate binding site [chemical binding]; other site 296591011468 FMN binding site [chemical binding]; other site 296591011469 putative catalytic residues [active] 296591011470 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 296591011471 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 296591011472 trimer interface [polypeptide binding]; other site 296591011473 eyelet of channel; other site 296591011474 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 296591011475 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 296591011476 FMN-binding pocket [chemical binding]; other site 296591011477 flavin binding motif; other site 296591011478 phosphate binding motif [ion binding]; other site 296591011479 beta-alpha-beta structure motif; other site 296591011480 NAD binding pocket [chemical binding]; other site 296591011481 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 296591011482 catalytic loop [active] 296591011483 iron binding site [ion binding]; other site 296591011484 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 296591011485 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 296591011486 [2Fe-2S] cluster binding site [ion binding]; other site 296591011487 START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC (SRPBCC) ligand-binding domain superfamily; Region: SRPBCC; cl14643 296591011488 hydrophobic ligand binding site; other site 296591011489 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591011490 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 296591011491 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 296591011492 putative active site [active] 296591011493 putative metal binding site [ion binding]; other site 296591011494 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 296591011495 Uncharacterized Candidatus pelagibacter aldehyde dehydrogenase, DhaS-like; Region: ALDH_DhaS; cd07114 296591011496 NAD(P) binding site [chemical binding]; other site 296591011497 catalytic residues [active] 296591011498 L-aspartate dehydrogenase; Provisional; Region: PRK13303 296591011499 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 296591011500 Domain of unknown function DUF108; Region: DUF108; pfam01958 296591011501 hypothetical protein; Provisional; Region: PRK07064 296591011502 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 296591011503 PYR/PP interface [polypeptide binding]; other site 296591011504 dimer interface [polypeptide binding]; other site 296591011505 TPP binding site [chemical binding]; other site 296591011506 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 296591011507 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 296591011508 TPP-binding site [chemical binding]; other site 296591011509 short chain dehydrogenase; Provisional; Region: PRK07062 296591011510 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 296591011511 putative NAD(P) binding site [chemical binding]; other site 296591011512 putative active site [active] 296591011513 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 296591011514 Transcriptional regulator [Transcription]; Region: IclR; COG1414 296591011515 Bacterial transcriptional regulator; Region: IclR; pfam01614 296591011516 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 296591011517 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 296591011518 Cupin domain; Region: Cupin_2; pfam07883 296591011519 short chain dehydrogenase; Provisional; Region: PRK12939 296591011520 classical (c) SDRs; Region: SDR_c; cd05233 296591011521 NAD(P) binding site [chemical binding]; other site 296591011522 active site 296591011523 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 296591011524 Cytochrome c; Region: Cytochrom_C; pfam00034 296591011525 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 296591011526 Cytochrome c; Region: Cytochrom_C; cl11414 296591011527 DNA Polymerase IV/Kappa; Region: PolY_Pol_IV_kappa; cd03586 296591011528 active site 296591011529 DNA polymerase IV; Validated; Region: PRK02406 296591011530 DNA binding site [nucleotide binding] 296591011531 Protein of unknown function (DUF3455); Region: DUF3455; pfam11937 296591011532 RNA polymerase sigma factor; Provisional; Region: PRK12534 296591011533 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 296591011534 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 296591011535 DNA binding residues [nucleotide binding] 296591011536 Anti-sigma-K factor rskA; Region: RskA; pfam10099 296591011537 DinB superfamily; Region: DinB_2; pfam12867 296591011538 Tetratricopeptide repeat; Region: TPR_16; pfam13432 296591011539 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 296591011540 TPR motif; other site 296591011541 binding surface 296591011542 Protein of Unknown function (DUF2784); Region: DUF2784; pfam10861 296591011543 Protein of unknown function (DUF1810); Region: DUF1810; pfam08837 296591011544 SnoaL-like domain; Region: SnoaL_2; pfam12680 296591011545 Cupin domain; Region: Cupin_2; pfam07883 296591011546 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2904 296591011547 7-cyano-7-deazaguanine reductase; Provisional; Region: queF; PRK11792 296591011548 Enzyme related to GTP cyclohydrolase I [General function prediction only]; Region: COG0780 296591011549 3-oxoadipate enol-lactonase; Region: protocat_pcaD; TIGR02427 296591011550 homoserine O-acetyltransferase; Provisional; Region: metX; cl17114 296591011551 TAP-like protein; Region: Abhydrolase_4; pfam08386 296591011552 Prolyl 4-hydroxylase alpha subunit homologues; Region: P4Hc; smart00702 296591011553 hypothetical protein; Validated; Region: PRK02101 296591011554 Protein of unknown function (DUF3501); Region: DUF3501; pfam12007 296591011555 Fe-S oxidoreductase [Energy production and conversion]; Region: GlpC; COG0247 296591011556 Cysteine-rich domain; Region: CCG; pfam02754 296591011557 Rubrerythrin [Energy production and conversion]; Region: COG1592 296591011558 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 296591011559 binuclear metal center [ion binding]; other site 296591011560 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 296591011561 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 296591011562 Zn binding site [ion binding]; other site 296591011563 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 296591011564 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 296591011565 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 296591011566 periplasmic serine pepetdase DegS; Region: protease_degS; TIGR02038 296591011567 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 296591011568 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 296591011569 protein binding site [polypeptide binding]; other site 296591011570 valyl-tRNA synthetase; Reviewed; Region: valS; PRK05729 296591011571 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 296591011572 active site 296591011573 HIGH motif; other site 296591011574 nucleotide binding site [chemical binding]; other site 296591011575 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 296591011576 catalytic core domain of valyl-tRNA synthetases; Region: ValRS_core; cd00817 296591011577 active site 296591011578 KMSKS motif; other site 296591011579 Anticodon-binding domain of valyl tRNA synthetases; Region: Anticodon_Ia_Val; cd07962 296591011580 tRNA binding surface [nucleotide binding]; other site 296591011581 anticodon binding site; other site 296591011582 Valyl tRNA synthetase tRNA binding arm; Region: Val_tRNA-synt_C; pfam10458 296591011583 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 296591011584 Formate/glycerate dehydrogenases, D-specific 2-hydroxy acid dehydrogenases and related dehydrogenases; Region: FDH_GDH_like; cl17240 296591011585 NAD binding site [chemical binding]; other site 296591011586 Prokaryotic UGPase catalyses the synthesis of UDP-glucose; Region: UGPase_prokaryotic; cd02541 296591011587 dTDP-glucose pyrophosphorylase [Cell envelope biogenesis, outer membrane]; Region: RfbA; COG1209 296591011588 active site 296591011589 tetramer interface; other site 296591011590 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 296591011591 CPxP motif; other site 296591011592 NADH pyrophosphatase zinc ribbon domain; Region: zf-NADH-PPase; pfam09297 296591011593 ADP-ribose pyrophosphatase [Nucleotide transport and metabolism]; Region: COG1051 296591011594 nudix motif; other site 296591011595 cysteine synthase B; Region: cysM; TIGR01138 296591011596 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 296591011597 dimer interface [polypeptide binding]; other site 296591011598 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591011599 catalytic residue [active] 296591011600 Site-specific DNA methylase [DNA replication, recombination, and repair]; Region: Dam; COG0338 296591011601 Uncharacterized protein conserved in bacteria (DUF2313); Region: DUF2313; pfam10076 296591011602 Uncharacterized homolog of phage Mu protein gp47 [Function unknown]; Region: XkdT; COG3299 296591011603 Phage protein GP46; Region: GP46; pfam07409 296591011604 phage baseplate assembly protein V; Region: phage_P2_V; TIGR01644 296591011605 Bacteriophage Mu Gp45 protein; Region: Phage_Mu_Gp45; cl15410 296591011606 Mu-like prophage tail protein gpP [General function prediction only]; Region: COG4379 296591011607 Phage late control gene D protein (GPD); Region: Phage_GPD; pfam05954 296591011608 Mu-like prophage DNA circulation protein [General function prediction only]; Region: COG4228 296591011609 DNA circulation protein N-terminus; Region: DNA_circ_N; pfam07157 296591011610 Mu-like prophage FluMu protein gp41; Region: FluMu_gp41; pfam10109 296591011611 Phage tail tube protein; Region: Tail_tube; pfam10618 296591011612 Mu-like prophage tail sheath protein gpL [General function prediction only]; Region: COG4386 296591011613 Phage tail sheath protein; Region: Phage_sheath_1; cl01389 296591011614 Phage tail sheath protein; Region: Phage_sheath_1; pfam04984 296591011615 Phage protein (N4 Gp49/phage Sf6 gene 66) family; Region: Phage_gp49_66; pfam13876 296591011616 Domain of unknown function (DUF1834); Region: DUF1834; pfam08873 296591011617 Protein of unknown function (DUF1320); Region: DUF1320; pfam07030 296591011618 Phage major capsid protein E; Region: Phage_cap_E; pfam03864 296591011619 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 296591011620 non-specific DNA binding site [nucleotide binding]; other site 296591011621 salt bridge; other site 296591011622 sequence-specific DNA binding site [nucleotide binding]; other site 296591011623 Mu DNA-binding domain; Region: HTH_Tnp_Mu_1; pfam02316 296591011624 Integrase core domain; Region: rve; pfam00665 296591011625 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 296591011626 AAA domain; Region: AAA_22; pfam13401 296591011627 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 296591011628 Walker A motif; other site 296591011629 ATP binding site [chemical binding]; other site 296591011630 Walker B motif; other site 296591011631 arginine finger; other site 296591011632 Predicted transcriptional regulator [General function prediction only]; Region: COG2522 296591011633 Helix-turn-helix XRE-family like proteins; Region: HTH_XRE; smart00530 296591011634 sequence-specific DNA binding site [nucleotide binding]; other site 296591011635 salt bridge; other site 296591011636 Protein of unknown function (DUF1018); Region: DUF1018; pfam06252 296591011637 Mor transcription activator family; Region: Mor; cl02360 296591011638 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 296591011639 amidase catalytic site [active] 296591011640 Zn binding residues [ion binding]; other site 296591011641 substrate binding site [chemical binding]; other site 296591011642 Prokaryotic dksA/traR C4-type zinc finger; Region: zf-dskA_traR; cl00755 296591011643 Protein of unknown function (DUF3486); Region: DUF3486; pfam11985 296591011644 Mu-like prophage FluMu protein gp28 [General function prediction only]; Region: COG4373 296591011645 Protein of unknown function (DUF935); Region: DUF935; pfam06074 296591011646 Mu-like prophage protein gp29 [Function unknown]; Region: COG4383 296591011647 Phage Mu protein F like protein; Region: Phage_Mu_F; cl10072 296591011648 Phage virion morphogenesis family; Region: Phage_tail_S; pfam05069 296591011649 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 296591011650 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591011651 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK12825 296591011652 NAD(P) binding site [chemical binding]; other site 296591011653 active site 296591011654 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 296591011655 atypical (a) SDRs, subgroup 4; Region: SDR_a4; cd05266 296591011656 putative NAD(P) binding site [chemical binding]; other site 296591011657 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated; Region: PRK07609 296591011658 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 296591011659 catalytic loop [active] 296591011660 iron binding site [ion binding]; other site 296591011661 NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN; Region: flavin_oxioreductase; cd06189 296591011662 FAD binding pocket [chemical binding]; other site 296591011663 FAD binding motif [chemical binding]; other site 296591011664 phosphate binding motif [ion binding]; other site 296591011665 beta-alpha-beta structure motif; other site 296591011666 NAD binding pocket [chemical binding]; other site 296591011667 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591011668 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 296591011669 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 296591011670 Walker A/P-loop; other site 296591011671 ATP binding site [chemical binding]; other site 296591011672 Q-loop/lid; other site 296591011673 ABC transporter signature motif; other site 296591011674 Walker B; other site 296591011675 D-loop; other site 296591011676 H-loop/switch region; other site 296591011677 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 296591011678 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 296591011679 Walker A/P-loop; other site 296591011680 ATP binding site [chemical binding]; other site 296591011681 Q-loop/lid; other site 296591011682 ABC transporter signature motif; other site 296591011683 Walker B; other site 296591011684 D-loop; other site 296591011685 H-loop/switch region; other site 296591011686 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 296591011687 TM-ABC transporter signature motif; other site 296591011688 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 296591011689 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 296591011690 TM-ABC transporter signature motif; other site 296591011691 recombination factor protein RarA; Reviewed; Region: PRK13342 296591011692 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 296591011693 Walker A motif; other site 296591011694 ATP binding site [chemical binding]; other site 296591011695 Walker B motif; other site 296591011696 arginine finger; other site 296591011697 MgsA AAA+ ATPase C terminal; Region: MgsA_C; pfam12002 296591011698 lipoprotein chaperone; Reviewed; Region: lolA; PRK00031 296591011699 Outer membrane lipoprotein carrier protein LolA; Region: LolA; pfam03548 296591011700 Domain of unknown function (DUF4117); Region: DUF4117; pfam13491 296591011701 FtsK/SpoIIIE family; Region: FtsK_SpoIIIE; pfam01580 296591011702 Ftsk gamma domain; Region: Ftsk_gamma; pfam09397 296591011703 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 296591011704 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 296591011705 ligand binding site [chemical binding]; other site 296591011706 flexible hinge region; other site 296591011707 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 296591011708 putative switch regulator; other site 296591011709 non-specific DNA interactions [nucleotide binding]; other site 296591011710 DNA binding site [nucleotide binding] 296591011711 sequence specific DNA binding site [nucleotide binding]; other site 296591011712 putative cAMP binding site [chemical binding]; other site 296591011713 thioredoxin reductase; Provisional; Region: PRK10262 296591011714 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 296591011715 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 296591011716 50S ribosomal protein L28; Reviewed; Region: rpmB; PRK00359 296591011717 50S ribosomal protein L33; Validated; Region: rpmG; PRK00595 296591011718 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 296591011719 Fatty acid desaturase; Region: FA_desaturase; pfam00487 296591011720 Di-iron ligands [ion binding]; other site 296591011721 16S rRNA methyltransferase B; Provisional; Region: PRK14901 296591011722 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 296591011723 S-adenosylmethionine binding site [chemical binding]; other site 296591011724 Peptidase family M48; Region: Peptidase_M48; cl12018 296591011725 Protein of unknown function (DUF1653); Region: DUF1653; pfam07866 296591011726 peptide chain release factor 3; Provisional; Region: prfC; PRK00741 296591011727 Release Factor 3 (RF3) protein involved in the terminal step of translocation in bacteria; Region: RF3; cd04169 296591011728 G1 box; other site 296591011729 putative GEF interaction site [polypeptide binding]; other site 296591011730 GTP/Mg2+ binding site [chemical binding]; other site 296591011731 Switch I region; other site 296591011732 G2 box; other site 296591011733 G3 box; other site 296591011734 Switch II region; other site 296591011735 G4 box; other site 296591011736 G5 box; other site 296591011737 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 296591011738 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591011739 dihydroxy-acid dehydratase; Validated; Region: PRK06131 296591011740 Hydroxy(phenyl)pyruvate Reductase, D-isomer-specific 2-hydroxyacid-related dehydrogenase; Region: HPPR; cd12156 296591011741 bifunctional glyoxylate/hydroxypyruvate reductase B; Provisional; Region: PRK15409 296591011742 putative ligand binding site [chemical binding]; other site 296591011743 NAD binding site [chemical binding]; other site 296591011744 catalytic site [active] 296591011745 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591011746 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591011747 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_2; cd08427 296591011748 putative dimerization interface [polypeptide binding]; other site 296591011749 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_18; cd08357 296591011750 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 296591011751 putative metal binding site [ion binding]; other site 296591011752 Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: DapA; COG0329 296591011753 Dihydrodipicolinate synthase family; Region: DHDPS-like; cd00408 296591011754 inhibitor site; inhibition site 296591011755 active site 296591011756 dimer interface [polypeptide binding]; other site 296591011757 catalytic residue [active] 296591011758 ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: UgpB; COG1653 296591011759 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 296591011760 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 296591011761 dimer interface [polypeptide binding]; other site 296591011762 conserved gate region; other site 296591011763 putative PBP binding loops; other site 296591011764 ABC-ATPase subunit interface; other site 296591011765 ABC-type sugar transport system, permease component [Carbohydrate transport and metabolism]; Region: UgpE; COG0395 296591011766 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 296591011767 dimer interface [polypeptide binding]; other site 296591011768 conserved gate region; other site 296591011769 putative PBP binding loops; other site 296591011770 ABC-ATPase subunit interface; other site 296591011771 glycerol-3-phosphate transporter ATP-binding subunit; Provisional; Region: ugpC; PRK11650 296591011772 The N-terminal ATPase domain of the maltose transporter, MalK; Region: ABC_MalK_N; cd03301 296591011773 Walker A/P-loop; other site 296591011774 ATP binding site [chemical binding]; other site 296591011775 Q-loop/lid; other site 296591011776 ABC transporter signature motif; other site 296591011777 Walker B; other site 296591011778 D-loop; other site 296591011779 H-loop/switch region; other site 296591011780 TOBE domain; Region: TOBE_2; pfam08402 296591011781 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 296591011782 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 296591011783 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 296591011784 2-pyrone-4,6-dicarboxylic acid (PDC) hydrolase hydrolyzes PDC to yield 4-oxalomesaconic acid (OMA) or its tautomer, 4-carboxy-2-hydroxymuconic acid (CHM). This reaction is part of the protocatechuate (PCA) 4,5-cleavage pathway. PCA is one of the most...; Region: PDC_hydrolase; cd01311 296591011785 active site 296591011786 Protein of unknown function (DUF3616); Region: DUF3616; pfam12275 296591011787 Penicillin-Binding Protein C-terminus Family; Region: BiPBP_C; pfam06832 296591011788 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 296591011789 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 296591011790 amidase; Provisional; Region: PRK07486 296591011791 Amidase; Region: Amidase; cl11426 296591011792 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591011793 1-aminocyclopropane-1-carboxylate deaminase [Amino acid transport and metabolism]; Region: Acd; COG2515 296591011794 Aminocyclopropane-1-carboxylate deaminase (ACCD): Pyridoxal phosphate (PLP)-dependent enzyme which catalyzes the conversion of 1-aminocyclopropane-L-carboxylate (ACC), a precursor of the plant hormone ethylene, to alpha-ketobutyrate and ammonia; Region: ACCD; cd06449 296591011795 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591011796 catalytic residue [active] 296591011797 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 296591011798 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 296591011799 AsnC family; Region: AsnC_trans_reg; pfam01037 296591011800 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 296591011801 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 296591011802 putative DNA binding site [nucleotide binding]; other site 296591011803 putative Zn2+ binding site [ion binding]; other site 296591011804 AsnC family; Region: AsnC_trans_reg; pfam01037 296591011805 2-oxoacid dehydrogenase subunit E1; Provisional; Region: PRK13012 296591011806 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 296591011807 dimer interface [polypeptide binding]; other site 296591011808 TPP-binding site [chemical binding]; other site 296591011809 Transketolase, pyrimidine binding domain; Region: Transket_pyr; smart00861 296591011810 lipid-transfer protein; Provisional; Region: PRK08256 296591011811 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 296591011812 active site 296591011813 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 296591011814 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 296591011815 FMN binding site [chemical binding]; other site 296591011816 substrate binding site [chemical binding]; other site 296591011817 putative catalytic residue [active] 296591011818 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 296591011819 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 296591011820 substrate binding site [chemical binding]; other site 296591011821 oxyanion hole (OAH) forming residues; other site 296591011822 trimer interface [polypeptide binding]; other site 296591011823 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 296591011824 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 296591011825 active site 296591011826 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 296591011827 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 296591011828 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 296591011829 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 296591011830 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 296591011831 acyl-activating enzyme (AAE) consensus motif; other site 296591011832 putative AMP binding site [chemical binding]; other site 296591011833 putative active site [active] 296591011834 putative CoA binding site [chemical binding]; other site 296591011835 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 296591011836 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 296591011837 Walker A/P-loop; other site 296591011838 ATP binding site [chemical binding]; other site 296591011839 Q-loop/lid; other site 296591011840 ABC transporter signature motif; other site 296591011841 Walker B; other site 296591011842 D-loop; other site 296591011843 H-loop/switch region; other site 296591011844 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 296591011845 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_1; cd06334 296591011846 putative ligand binding site [chemical binding]; other site 296591011847 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 296591011848 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 296591011849 TM-ABC transporter signature motif; other site 296591011850 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 296591011851 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 296591011852 TM-ABC transporter signature motif; other site 296591011853 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 296591011854 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 296591011855 Walker A/P-loop; other site 296591011856 ATP binding site [chemical binding]; other site 296591011857 Q-loop/lid; other site 296591011858 ABC transporter signature motif; other site 296591011859 Walker B; other site 296591011860 D-loop; other site 296591011861 H-loop/switch region; other site 296591011862 phosphoribosylglycinamide formyltransferase; Reviewed; Region: purN; PRK05647 296591011863 Phosphoribosylglycinamide formyltransferase (GAR transformylase, GART); Region: FMT_core_GART; cd08645 296591011864 active site 296591011865 substrate binding site [chemical binding]; other site 296591011866 cosubstrate binding site; other site 296591011867 catalytic site [active] 296591011868 hypothetical protein; Provisional; Region: PRK11239 296591011869 Protein of unknown function, DUF480; Region: DUF480; pfam04337 296591011870 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 296591011871 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 296591011872 active site 296591011873 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 296591011874 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 296591011875 active site 296591011876 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 296591011877 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 296591011878 active site 296591011879 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed; Region: PRK05627 296591011880 FAD synthetase, N-terminal domain of the bifunctional enzyme; Region: FAD_synthetase_N; cd02064 296591011881 active site 296591011882 Riboflavin kinase; Region: Flavokinase; smart00904 296591011883 isoleucyl-tRNA synthetase; Reviewed; Region: ileS; PRK05743 296591011884 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 296591011885 active site 296591011886 HIGH motif; other site 296591011887 nucleotide binding site [chemical binding]; other site 296591011888 catalytic core domain of isoleucyl-tRNA synthetases; Region: IleRS_core; cd00818 296591011889 active site 296591011890 KMSKS motif; other site 296591011891 Anticodon-binding domain of bacterial and eukaryotic mitochondrial isoleucyl tRNA synthetases; Region: Anticodon_Ia_Ile_BEm; cd07960 296591011892 tRNA binding surface [nucleotide binding]; other site 296591011893 anticodon binding site; other site 296591011894 Zinc finger found in FPG and IleRS; Region: zf-FPG_IleRS; pfam06827 296591011895 lipoprotein signal peptidase; Reviewed; Region: lspA; PRK00376 296591011896 Na+/phosphate symporter [Inorganic ion transport and metabolism]; Region: NptA; COG1283 296591011897 Na+/Pi-cotransporter; Region: Na_Pi_cotrans; pfam02690 296591011898 PhoU domain; Region: PhoU; pfam01895 296591011899 PhoU domain; Region: PhoU; pfam01895 296591011900 Nudix hydrolase is a superfamily of enzymes found in all three kingdoms of life, and it catalyzes the hydrolysis of NUcleoside DIphosphates linked to other moieties, X. Enzymes belonging to this superfamily require a divalent cation, such as Mg2+ or Mn2+...; Region: Nudix_Hydrolase; cl00447 296591011901 nudix motif; other site 296591011902 quinone oxidoreductase, NADPH-dependent; Provisional; Region: PRK10754 296591011903 Quinone oxidoreductase (QOR); Region: QOR2; cd05286 296591011904 NADP binding site [chemical binding]; other site 296591011905 dimer interface [polypeptide binding]; other site 296591011906 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591011907 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 296591011908 Cupin domain; Region: Cupin_2; pfam07883 296591011909 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 296591011910 Transcriptional regulator [Transcription]; Region: IclR; COG1414 296591011911 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 296591011912 Bacterial transcriptional regulator; Region: IclR; pfam01614 296591011913 Bacterial capsule synthesis protein PGA_cap; Region: PGA_cap; smart00854 296591011914 CapA and related proteins, metallophosphatase domain; Region: MPP_CapA; cd07381 296591011915 putative active site [active] 296591011916 putative metal binding site [ion binding]; other site 296591011917 Winged helix-turn helix; Region: HTH_33; pfam13592 296591011918 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 296591011919 Cation transporter/ATPase, N-terminus; Region: Cation_ATPase_N; pfam00690 296591011920 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: MgtA; COG0474 296591011921 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 296591011922 Ligand Binding Site [chemical binding]; other site 296591011923 transcriptional activator NhaR; Provisional; Region: nhaR; PRK11062 296591011924 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591011925 The C-terminal substrate binding domain of LysR-type transcriptional activator of the nhaA gene, encoding Na+/H+ antiporter, contains the type 2 periplasmic binding fold; Region: PBP2_NhaR; cd08429 296591011926 putative dimerization interface [polypeptide binding]; other site 296591011927 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 296591011928 ATP binding site [chemical binding]; other site 296591011929 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591011930 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591011931 aconitate hydratase; Provisional; Region: acnA; PRK12881 296591011932 Aconitase A catalytic domain; Region: AcnA_IRP; cd01586 296591011933 substrate binding site [chemical binding]; other site 296591011934 ligand binding site [chemical binding]; other site 296591011935 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 296591011936 substrate binding site [chemical binding]; other site 296591011937 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591011938 DNA-binding site [nucleotide binding]; DNA binding site 296591011939 Transcriptional regulators [Transcription]; Region: GntR; COG1802 296591011940 FCD domain; Region: FCD; pfam07729 296591011941 Bacterial periplasmic substrate-binding proteins; Region: PBPb; smart00062 296591011942 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 296591011943 substrate binding pocket [chemical binding]; other site 296591011944 hinge residues; other site 296591011945 Lactonase, 7-bladed beta-propeller; Region: Lactonase; pfam10282 296591011946 Protein of unknown function (DUF1236); Region: DUF1236; pfam06823 296591011947 short chain dehydrogenase; Provisional; Region: PRK08339 296591011948 putative beta-ketoacyl acyl carrier protein [ACP] reductase (BKR)-like, SDR; Region: BKR_like_SDR_like; cd05344 296591011949 putative NAD(P) binding site [chemical binding]; other site 296591011950 putative active site [active] 296591011951 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 296591011952 EamA-like transporter family; Region: EamA; pfam00892 296591011953 Gamma-glutamyltransferase [Amino acid transport and metabolism]; Region: Ggt; COG0405 296591011954 Gamma-glutamyltranspeptidase; Region: G_glu_transpept; pfam01019 296591011955 Protein of unknown function (DUF3422); Region: DUF3422; pfam11902 296591011956 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3333 296591011957 Tripartite tricarboxylate transporter TctB family; Region: TctB; pfam07331 296591011958 Type II secretion system (T2SS), protein E, N-terminal domain; Region: T2SE_Nter; pfam05157 296591011959 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PulE; COG2804 296591011960 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 296591011961 Walker A motif; other site 296591011962 ATP binding site [chemical binding]; other site 296591011963 Walker B motif; other site 296591011964 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 296591011965 MUG-like Uracil-DNA glycosylase enzyme family; Region: UDG_MUG_like; cd10032 296591011966 putative active site [active] 296591011967 TatD like proteins; E.coli TatD is a cytoplasmic protein, shown to have magnesium dependent DNase activity; Region: TatD_DNAse; cd01310 296591011968 active site 296591011969 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 296591011970 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 296591011971 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 296591011972 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 296591011973 Walker A/P-loop; other site 296591011974 ATP binding site [chemical binding]; other site 296591011975 Q-loop/lid; other site 296591011976 ABC transporter signature motif; other site 296591011977 Walker B; other site 296591011978 D-loop; other site 296591011979 H-loop/switch region; other site 296591011980 TOBE domain; Region: TOBE_2; pfam08402 296591011981 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 296591011982 conserved gate region; other site 296591011983 putative PBP binding loops; other site 296591011984 ABC-ATPase subunit interface; other site 296591011985 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 296591011986 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 296591011987 dimer interface [polypeptide binding]; other site 296591011988 conserved gate region; other site 296591011989 putative PBP binding loops; other site 296591011990 ABC-ATPase subunit interface; other site 296591011991 Trypsin-like peptidase domain; Region: Trypsin_2; pfam13365 296591011992 MoxR-like ATPases [General function prediction only]; Region: COG0714 296591011993 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 296591011994 Walker A motif; other site 296591011995 ATP binding site [chemical binding]; other site 296591011996 Walker B motif; other site 296591011997 arginine finger; other site 296591011998 Uncharacterized conserved protein (some members contain a von Willebrand factor type A (vWA) domain) [General function prediction only]; Region: COG1721 296591011999 Protein of unknown function DUF58; Region: DUF58; pfam01882 296591012000 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 296591012001 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 296591012002 metal ion-dependent adhesion site (MIDAS); other site 296591012003 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 296591012004 HSP70 interaction site [polypeptide binding]; other site 296591012005 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 296591012006 GAF domain; Region: GAF_3; pfam13492 296591012007 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 296591012008 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 296591012009 ATP binding site [chemical binding]; other site 296591012010 Mg2+ binding site [ion binding]; other site 296591012011 G-X-G motif; other site 296591012012 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 296591012013 active site 296591012014 phosphorylation site [posttranslational modification] 296591012015 intermolecular recognition site; other site 296591012016 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 296591012017 dimerization interface [polypeptide binding]; other site 296591012018 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 296591012019 dimer interface [polypeptide binding]; other site 296591012020 phosphorylation site [posttranslational modification] 296591012021 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 296591012022 ATP binding site [chemical binding]; other site 296591012023 Mg2+ binding site [ion binding]; other site 296591012024 G-X-G motif; other site 296591012025 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 296591012026 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 296591012027 Walker A/P-loop; other site 296591012028 ATP binding site [chemical binding]; other site 296591012029 Q-loop/lid; other site 296591012030 ABC transporter signature motif; other site 296591012031 Walker B; other site 296591012032 D-loop; other site 296591012033 H-loop/switch region; other site 296591012034 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 296591012035 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 296591012036 dimer interface [polypeptide binding]; other site 296591012037 conserved gate region; other site 296591012038 putative PBP binding loops; other site 296591012039 ABC-ATPase subunit interface; other site 296591012040 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 296591012041 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 296591012042 dimer interface [polypeptide binding]; other site 296591012043 conserved gate region; other site 296591012044 putative PBP binding loops; other site 296591012045 ABC-ATPase subunit interface; other site 296591012046 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 296591012047 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 296591012048 substrate binding pocket [chemical binding]; other site 296591012049 membrane-bound complex binding site; other site 296591012050 hinge residues; other site 296591012051 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591012052 aminoethylphosphonate catabolism associated LysR family transcriptional regulator; Region: phn_lysR; TIGR03339 296591012053 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 296591012054 dimerization interface [polypeptide binding]; other site 296591012055 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 296591012056 ABC-type transport system involved in Fe-S cluster assembly, permease and ATPase components [Posttranslational modification, protein turnover, chaperones]; Region: ATM1; COG5265 296591012057 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 296591012058 Walker A/P-loop; other site 296591012059 ATP binding site [chemical binding]; other site 296591012060 Q-loop/lid; other site 296591012061 ABC transporter signature motif; other site 296591012062 Walker B; other site 296591012063 D-loop; other site 296591012064 H-loop/switch region; other site 296591012065 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 296591012066 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4430 296591012067 Bacteriocin-protection, YdeI or OmpD-Associated; Region: OmdA; pfam13376 296591012068 Hemerythrin family; Region: Hemerythrin-like; cl15774 296591012069 Fe binding site [ion binding]; other site 296591012070 Predicted nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG0702 296591012071 NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, subunit 9, 39 kDa, (NDUFA9) -like, atypical (a) SDRs; Region: NDUFA9_like_SDR_a; cd05271 296591012072 putative NAD(P) binding site [chemical binding]; other site 296591012073 active site 296591012074 glutathione S-transferase; Provisional; Region: PRK15113 296591012075 GST_N family, unknown subfamily 1; composed of uncharacterized proteins, predominantly from bacteria, with similarity to GSTs. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with...; Region: GST_N_1; cd03043 296591012076 putative C-terminal domain interface [polypeptide binding]; other site 296591012077 putative GSH binding site (G-site) [chemical binding]; other site 296591012078 putative dimer interface [polypeptide binding]; other site 296591012079 C-terminal, alpha helical domain of an unknown subfamily 3 of Glutathione S-transferases; Region: GST_C_3; cd03194 296591012080 putative N-terminal domain interface [polypeptide binding]; other site 296591012081 putative dimer interface [polypeptide binding]; other site 296591012082 putative substrate binding pocket (H-site) [chemical binding]; other site 296591012083 multifunctional tRNA nucleotidyl transferase/2'3'-cyclic phosphodiesterase/2'nucleotidase/phosphatase; Reviewed; Region: cca; PRK10885 296591012084 Nucleotidyltransferase (NT) domain of ClassII CCA-adding enzymes; Region: NT_ClassII-CCAase; cd05398 296591012085 active site 296591012086 NTP binding site [chemical binding]; other site 296591012087 metal binding triad [ion binding]; metal-binding site 296591012088 Probable RNA and SrmB- binding site of polymerase A; Region: PolyA_pol_RNAbd; pfam12627 296591012089 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 296591012090 Trehalose-phosphatase; Region: Trehalose_PPase; pfam02358 296591012091 active site 296591012092 motif I; other site 296591012093 motif II; other site 296591012094 Glucoamylase and related glycosyl hydrolases [Carbohydrate transport and metabolism]; Region: SGA1; COG3387 296591012095 Glycosyl hydrolases family 15; Region: Glyco_hydro_15; pfam00723 296591012096 alpha,alpha-trehalose-phosphate synthase [UDP-forming]; Region: trehalose_OtsA; TIGR02400 296591012097 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 296591012098 active site 296591012099 homotetramer interface [polypeptide binding]; other site 296591012100 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 296591012101 CoenzymeA binding site [chemical binding]; other site 296591012102 subunit interaction site [polypeptide binding]; other site 296591012103 PHB binding site; other site 296591012104 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 296591012105 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 296591012106 Predicted RNA polymerase sigma factor containing a TPR repeat domain [Transcription]; Region: COG4941 296591012107 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 296591012108 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 296591012109 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_24; cd09012 296591012110 Ligand-binding SRPBCC domain of an uncharacterized subfamily of proteins; Region: SRPBCC_1; cd07818 296591012111 putative hydrophobic ligand binding site [chemical binding]; other site 296591012112 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 296591012113 YCII-related domain; Region: YCII; cl00999 296591012114 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 296591012115 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 296591012116 Methyltransferase domain; Region: Methyltransf_11; pfam08241 296591012117 short chain dehydrogenase; Provisional; Region: PRK08278 296591012118 human hydroxysteroid dehydrogenase-like protein 2 (HSDL2), classical (c) SDRs; Region: HSDL2_SDR_c; cd09762 296591012119 NAD(P) binding site [chemical binding]; other site 296591012120 homodimer interface [polypeptide binding]; other site 296591012121 active site 296591012122 enoyl-CoA hydratase; Provisional; Region: PRK06688 296591012123 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 296591012124 substrate binding site [chemical binding]; other site 296591012125 oxyanion hole (OAH) forming residues; other site 296591012126 trimer interface [polypeptide binding]; other site 296591012127 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 296591012128 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 296591012129 Thioesterase-like superfamily; Region: 4HBT_3; pfam13622 296591012130 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 296591012131 Major Facilitator Superfamily; Region: MFS_1; pfam07690 296591012132 putative substrate translocation pore; other site 296591012133 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 296591012134 DsrE/DsrF-like family; Region: DrsE; cl00672 296591012135 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 296591012136 dimerization interface [polypeptide binding]; other site 296591012137 putative DNA binding site [nucleotide binding]; other site 296591012138 putative Zn2+ binding site [ion binding]; other site 296591012139 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 296591012140 active site residue [active] 296591012141 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4339 296591012142 hypothetical protein; Provisional; Region: PRK10039 296591012143 Helix-turn-helix XRE-family like proteins. Prokaryotic DNA binding proteins belonging to the xenobiotic response element family of transcriptional regulators; Region: HTH_XRE; cl17200 296591012144 sequence-specific DNA binding site [nucleotide binding]; other site 296591012145 salt bridge; other site 296591012146 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 296591012147 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 296591012148 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 296591012149 hydroxyglutarate oxidase; Provisional; Region: PRK11728 296591012150 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 296591012151 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 296591012152 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 296591012153 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 296591012154 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 296591012155 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 296591012156 dimer interface [polypeptide binding]; other site 296591012157 conserved gate region; other site 296591012158 putative PBP binding loops; other site 296591012159 ABC-ATPase subunit interface; other site 296591012160 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 296591012161 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 296591012162 dimer interface [polypeptide binding]; other site 296591012163 conserved gate region; other site 296591012164 putative PBP binding loops; other site 296591012165 ABC-ATPase subunit interface; other site 296591012166 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 296591012167 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 296591012168 Walker A/P-loop; other site 296591012169 ATP binding site [chemical binding]; other site 296591012170 Q-loop/lid; other site 296591012171 ABC transporter signature motif; other site 296591012172 Walker B; other site 296591012173 D-loop; other site 296591012174 H-loop/switch region; other site 296591012175 TOBE domain; Region: TOBE_2; pfam08402 296591012176 Transcriptional regulator [Transcription]; Region: IclR; COG1414 296591012177 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 296591012178 Bacterial transcriptional regulator; Region: IclR; pfam01614 296591012179 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 296591012180 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591012181 The C-terminal substrate binding domain of LysR-type transcriptional regulators GcdR-like, contains the type 2 periplasmic binding fold; Region: PBP2_GcdR_like; cd08481 296591012182 dimerization interface [polypeptide binding]; other site 296591012183 substrate binding pocket [chemical binding]; other site 296591012184 Domain of unknown function (DUF1338); Region: DUF1338; pfam07063 296591012185 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 296591012186 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 296591012187 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591012188 homodimer interface [polypeptide binding]; other site 296591012189 catalytic residue [active] 296591012190 NAD+-dependent alpha-aminoadipic semialdehyde dehydrogenase, ALDH family members 7A1 and 7B; Region: ALDH_F7_AASADH; cd07130 296591012191 aldehyde dehydrogenase family 7 member; Region: PLN02315 296591012192 tetrameric interface [polypeptide binding]; other site 296591012193 NAD binding site [chemical binding]; other site 296591012194 catalytic residues [active] 296591012195 acetyl-CoA acetyltransferase; Provisional; Region: PRK09052 296591012196 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 296591012197 dimer interface [polypeptide binding]; other site 296591012198 active site 296591012199 Domain of unknown function, appears to be related to a diverse group of endonucleases; Region: Endonuclease_DUF559; cd01038 296591012200 putative active site [active] 296591012201 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 296591012202 CoenzymeA binding site [chemical binding]; other site 296591012203 subunit interaction site [polypeptide binding]; other site 296591012204 PHB binding site; other site 296591012205 3-hydroxyacyl-CoA dehydrogenase [Lipid metabolism]; Region: FadB; COG1250 296591012206 3-hydroxyacyl-CoA dehydrogenase, NAD binding domain; Region: 3HCDH_N; pfam02737 296591012207 3-hydroxyacyl-CoA dehydrogenase, C-terminal domain; Region: 3HCDH; pfam00725 296591012208 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 296591012209 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 296591012210 substrate binding site [chemical binding]; other site 296591012211 oxyanion hole (OAH) forming residues; other site 296591012212 Acyl-CoA dehydrogenase N terminal; Region: AcylCoA_DH_N; pfam12418 296591012213 acyl-CoA dehydrogenase; Provisional; Region: PTZ00456 296591012214 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 296591012215 active site 296591012216 Acetyl-CoA dehydrogenase C-terminal like; Region: Acyl-CoA_dh_C; pfam12806 296591012217 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 296591012218 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 296591012219 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 296591012220 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; pfam01557 296591012221 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 296591012222 classical (c) SDRs; Region: SDR_c; cd05233 296591012223 NAD(P) binding site [chemical binding]; other site 296591012224 active site 296591012225 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 296591012226 human DHRS6-like, classical (c) SDRs; Region: DHRS6_like_SDR_c; cd05368 296591012227 NAD binding site [chemical binding]; other site 296591012228 homotetramer interface [polypeptide binding]; other site 296591012229 homodimer interface [polypeptide binding]; other site 296591012230 active site 296591012231 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 296591012232 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 296591012233 active site pocket [active] 296591012234 Predicted transcriptional regulators [Transcription]; Region: COG1725 296591012235 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591012236 DNA-binding site [nucleotide binding]; DNA binding site 296591012237 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 296591012238 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 296591012239 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 296591012240 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 296591012241 DctM-like transporters; Region: DctM; pfam06808 296591012242 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 296591012243 Domains similar to fish antifreeze type III protein; Region: SAF_AH_GD; cd11613 296591012244 galactarate dehydratase; Region: galactar-dH20; TIGR03248 296591012245 D-galactarate dehydratase / Altronate hydrolase, C terminus; Region: GD_AH_C; pfam04295 296591012246 putative dehydrogenase; Provisional; Region: PRK10098 296591012247 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 296591012248 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591012249 NAD(P) binding site [chemical binding]; other site 296591012250 active site 296591012251 Mannitol-1-phosphate/altronate dehydrogenases [Carbohydrate transport and metabolism]; Region: MtlD; COG0246 296591012252 Mannitol dehydrogenase Rossmann domain; Region: Mannitol_dh; pfam01232 296591012253 Mannitol dehydrogenase C-terminal domain; Region: Mannitol_dh_C; pfam08125 296591012254 Uncharacterized conserved protein [Function unknown]; Region: COG3391 296591012255 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 296591012256 structural tetrad; other site 296591012257 Malate/L-lactate dehydrogenase; Region: Ldh_2; cl00900 296591012258 ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]; Region: GlnQ; COG1126 296591012259 ATP-binding cassette domain of the histidine and glutamine transporters; Region: ABC_HisP_GlnQ; cd03262 296591012260 Walker A/P-loop; other site 296591012261 ATP binding site [chemical binding]; other site 296591012262 Q-loop/lid; other site 296591012263 ABC transporter signature motif; other site 296591012264 Walker B; other site 296591012265 D-loop; other site 296591012266 H-loop/switch region; other site 296591012267 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 296591012268 dimer interface [polypeptide binding]; other site 296591012269 conserved gate region; other site 296591012270 putative PBP binding loops; other site 296591012271 ABC-ATPase subunit interface; other site 296591012272 ABC-type arginine transport system, permease component [Amino acid transport and metabolism]; Region: ArtQ; COG4215 296591012273 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 296591012274 dimer interface [polypeptide binding]; other site 296591012275 conserved gate region; other site 296591012276 putative PBP binding loops; other site 296591012277 ABC-ATPase subunit interface; other site 296591012278 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 296591012279 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 296591012280 substrate binding pocket [chemical binding]; other site 296591012281 membrane-bound complex binding site; other site 296591012282 hinge residues; other site 296591012283 Transcriptional regulators [Transcription]; Region: FadR; COG2186 296591012284 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591012285 DNA-binding site [nucleotide binding]; DNA binding site 296591012286 FCD domain; Region: FCD; pfam07729 296591012287 bifunctional D-altronate/D-mannonate dehydratase; Provisional; Region: PRK15072 296591012288 The starvation sensing protein RpsA from E.coli and its homologs are lactonizing enzymes whose putative targets are homoserine lactone (HSL)-derivative. They are part of the mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of...; Region: rpsA; cd03322 296591012289 putative active site pocket [active] 296591012290 putative metal binding site [ion binding]; other site 296591012291 division inhibitor protein; Provisional; Region: slmA; PRK09480 296591012292 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 296591012293 HAMP domain; Region: HAMP; pfam00672 296591012294 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 296591012295 dimer interface [polypeptide binding]; other site 296591012296 phosphorylation site [posttranslational modification] 296591012297 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 296591012298 ATP binding site [chemical binding]; other site 296591012299 Mg2+ binding site [ion binding]; other site 296591012300 G-X-G motif; other site 296591012301 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 296591012302 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 296591012303 active site 296591012304 phosphorylation site [posttranslational modification] 296591012305 intermolecular recognition site; other site 296591012306 dimerization interface [polypeptide binding]; other site 296591012307 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 296591012308 DNA binding site [nucleotide binding] 296591012309 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 296591012310 feedback inhibition sensing region; other site 296591012311 homohexameric interface [polypeptide binding]; other site 296591012312 carbamate kinase; Reviewed; Region: PRK12686 296591012313 nucleotide binding site [chemical binding]; other site 296591012314 N-acetyl-L-glutamate binding site [chemical binding]; other site 296591012315 Predicted nucleoside-diphosphate sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: COG1086 296591012316 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 296591012317 UDP-Glcnac (UDP-linked N-acetylglucosamine) inverting 4,6-dehydratase, extended (e) SDRs; Region: UDP_invert_4-6DH_SDR_e; cd05237 296591012318 NAD(P) binding site [chemical binding]; other site 296591012319 homodimer interface [polypeptide binding]; other site 296591012320 substrate binding site [chemical binding]; other site 296591012321 active site 296591012322 H-NS histone family; Region: Histone_HNS; pfam00816 296591012323 Domain in histone-like proteins of HNS family; Region: HNS; smart00528 296591012324 Bacterial sugar transferase; Region: Bac_transf; pfam02397 296591012325 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 296591012326 UDP-glucose 4 epimerase, subgroup 4, extended (e) SDRs; Region: UDP_G4E_4_SDR_e; cd05232 296591012327 putative NAD(P) binding site [chemical binding]; other site 296591012328 active site 296591012329 putative substrate binding site [chemical binding]; other site 296591012330 This family is most closely related to the GT1 family of glycosyltransferases. cap1E in Streptococcus pneumoniae is required for the synthesis of type 1 capsular polysaccharides; Region: GT1_cap1E_like; cd03808 296591012331 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 296591012332 putative ADP-binding pocket [chemical binding]; other site 296591012333 Glutamine amidotransferases class-II (GATase) asparagine synthase_B type. Asparagine synthetase B catalyses the ATP-dependent conversion of aspartate to asparagine. This enzyme is a homodimer, with each monomer composed of a glutaminase domain and a...; Region: AsnB; cd00712 296591012334 active site 296591012335 dimer interface [polypeptide binding]; other site 296591012336 Glutamine amidotransferase domain; Region: GATase_6; pfam13522 296591012337 The C-terminal domain of Asparagine Synthase B. This domain is always found associated n-terminal amidotransferase domain. Family members that contain this domain catalyse the conversion of aspartate to asparagine. Asparagine synthetase B catalyzes the...; Region: Asn_Synthase_B_C; cd01991 296591012338 Ligand Binding Site [chemical binding]; other site 296591012339 Molecular Tunnel; other site 296591012340 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 296591012341 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 296591012342 Predicted glycosyltransferases [General function prediction only]; Region: COG1216 296591012343 Subfamily of Glycosyltransferase Family GT2 of unknown function; Region: GT_2_like_c; cd04186 296591012344 Probable Catalytic site; other site 296591012345 metal-binding site 296591012346 Putative zinc binding domain; Region: Methyltransf_13; pfam08421 296591012347 Methyltransferase domain; Region: Methyltransf_23; pfam13489 296591012348 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 296591012349 C-methyltransferase C-terminal domain; Region: Methyltransf_14; pfam08484 296591012350 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 296591012351 Glycosyltransferase family A (GT-A) includes diverse families of glycosyl transferases with a common GT-A type structural fold; Region: Glyco_tranf_GTA_type; cd00761 296591012352 active site 296591012353 Glycosyltransferases involved in cell wall biogenesis [Cell envelope biogenesis, outer membrane]; Region: WcaA; COG0463 296591012354 Glycosyl transferase family 2; Region: Glycos_transf_2; pfam00535 296591012355 active site 296591012356 methyltransferase, FkbM family; Region: fkbM_fam; TIGR01444 296591012357 Membrane protein involved in the export of O-antigen and teichoic acid [General function prediction only]; Region: RfbX; COG2244 296591012358 Multidrug and toxic compound extrusion family and similar proteins; Region: MATE_like; cl09326 296591012359 Vi polysaccharide biosynthesis protein TviC; Provisional; Region: PRK15181 296591012360 UDP-N-acetylglucosamine 4-epimerase, extended (e) SDRs; Region: UDP_AE_SDR_e; cd05256 296591012361 NAD binding site [chemical binding]; other site 296591012362 substrate binding site [chemical binding]; other site 296591012363 homodimer interface [polypeptide binding]; other site 296591012364 active site 296591012365 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 296591012366 Vi polysaccharide biosynthesis protein TviB; Provisional; Region: PRK15182 296591012367 NAD(P) binding site [chemical binding]; other site 296591012368 UDP-glucose/GDP-mannose dehydrogenase family, central domain; Region: UDPG_MGDP_dh; pfam00984 296591012369 UDP binding domain; Region: UDPG_MGDP_dh_C; smart00984 296591012370 This subfamily is composed of uncharacterized bacterial glycosyltransferases in the MraY-like family. This family contains both eukaryotic and prokaryotic UDP-D-N-acetylhexosamine:polyprenol phosphate D-N-acetylhexosamine-1-phosphate transferases, which...; Region: GT_MraY_like; cd06912 296591012371 Mg++ binding site [ion binding]; other site 296591012372 UDP-N-acetylmuramyl pentapeptide phosphotransferase/UDP-N- acetylglucosamine-1-phosphate transferase [Cell envelope biogenesis, outer membrane]; Region: Rfe; COG0472 296591012373 putative catalytic motif [active] 296591012374 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 296591012375 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 296591012376 Substrate binding site; other site 296591012377 Cupin domain; Region: Cupin_2; cl17218 296591012378 GDP-fucose synthetase, extended (e) SDRs; Region: GDP_FS_SDR_e; cd05239 296591012379 GDP-4-keto-6-deoxymannose-3, 5-epimerase-4-reductase; Region: PLN02725 296591012380 NADP binding site [chemical binding]; other site 296591012381 active site 296591012382 putative substrate binding site [chemical binding]; other site 296591012383 Glycosyl transferases group 1; Region: Glyco_trans_1_2; pfam13524 296591012384 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 296591012385 ABC-2 type transporter; Region: ABC2_membrane; pfam01061 296591012386 ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagH; COG1134 296591012387 ATP-binding cassette component of polysaccharide transport system; Region: ABC_KpsT_Wzt; cd03220 296591012388 Walker A/P-loop; other site 296591012389 ATP binding site [chemical binding]; other site 296591012390 Q-loop/lid; other site 296591012391 ABC transporter signature motif; other site 296591012392 Walker B; other site 296591012393 D-loop; other site 296591012394 H-loop/switch region; other site 296591012395 C-Terminal domain of O-antigenic polysaccharide transporter protein Wzt and related proteins; Region: Wzt_C-like; cd10147 296591012396 putative carbohydrate binding site [chemical binding]; other site 296591012397 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 296591012398 S-adenosylmethionine binding site [chemical binding]; other site 296591012399 Methyltransferase domain; Region: Methyltransf_23; pfam13489 296591012400 GtrA-like protein; Region: GtrA; pfam04138 296591012401 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591012402 NAD dependent epimerase/dehydratase family; Region: Epimerase; pfam01370 296591012403 NAD(P) binding site [chemical binding]; other site 296591012404 active site 296591012405 undecaprenyl phosphate 4-deoxy-4-formamido-L-arabinose transferase; Provisional; Region: PRK10714 296591012406 Bacterial DPM1_like enzymes are related to eukaryotic DPM1; Region: DPM1_like_bac; cd04187 296591012407 Ligand binding site; other site 296591012408 Putative Catalytic site; other site 296591012409 DXD motif; other site 296591012410 NfeD-like C-terminal, partner-binding; Region: NfeD; cl00686 296591012411 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 296591012412 G1P_cytidylyltransferase catalyzes the production of CDP-D-Glucose; Region: G1P_cytidylyltransferase; cd02524 296591012413 substrate binding site; other site 296591012414 CDP-glucose 4,6-dehydratase; Region: CDP_4_6_dhtase; TIGR02622 296591012415 CDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: CDP_GD_SDR_e; cd05252 296591012416 NAD binding site [chemical binding]; other site 296591012417 homotetramer interface [polypeptide binding]; other site 296591012418 homodimer interface [polypeptide binding]; other site 296591012419 substrate binding site [chemical binding]; other site 296591012420 active site 296591012421 lipopolysaccharide biosynthesis protein RfbH; Provisional; Region: PRK15407 296591012422 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 296591012423 inhibitor-cofactor binding pocket; inhibition site 296591012424 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591012425 catalytic residue [active] 296591012426 GDP-D-mannose dehydratase [Cell envelope biogenesis, outer membrane]; Region: Gmd; COG1089 296591012427 GDP-mannose 4,6 dehydratase, extended (e) SDRs; Region: GDP_MD_SDR_e; cd05260 296591012428 NADP-binding site; other site 296591012429 homotetramer interface [polypeptide binding]; other site 296591012430 substrate binding site [chemical binding]; other site 296591012431 homodimer interface [polypeptide binding]; other site 296591012432 active site 296591012433 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 296591012434 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591012435 NAD(P) binding site [chemical binding]; other site 296591012436 active site 296591012437 D-hexose-6-phosphate epimerase-like; Region: D-hex-6-P-epi_like; cd09020 296591012438 active site 296591012439 phosphate binding residues; other site 296591012440 catalytic residues [active] 296591012441 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 296591012442 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 296591012443 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 296591012444 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_4; cd03795 296591012445 putative ADP-binding pocket [chemical binding]; other site 296591012446 dTDP-4-dehydrorhamnose 3,5-epimerase; Region: rmlC; TIGR01221 296591012447 G1P_TT_short is the short form of glucose-1-phosphate thymidylyltransferase; Region: G1P_TT_short; cd02538 296591012448 glucose-1-phosphate thymidylyltransferase, short form; Region: rmlA; TIGR01207 296591012449 substrate binding site; other site 296591012450 tetramer interface; other site 296591012451 PIN domain of ribonucleases (toxins), VapC and FitB, of prokaryotic toxin/antitoxin operons, Pyrococcus horikoshii protein PH0500, and other similar bacterial and archaeal homologs; Region: PIN_VapC-FitB; cd09881 296591012452 oligomeric interface; other site 296591012453 putative active site [active] 296591012454 homodimer interface [polypeptide binding]; other site 296591012455 Plasmid stability protein [General function prediction only]; Region: StbC; COG4691 296591012456 dTDP-4-dehydrorhamnose reductase; Provisional; Region: PRK09987 296591012457 dTDP-6-deoxy-L-lyxo-4-hexulose reductase and related proteins, extended (e) SDRs; Region: dTDP_HR_like_SDR_e; cd05254 296591012458 NADP binding site [chemical binding]; other site 296591012459 active site 296591012460 putative substrate binding site [chemical binding]; other site 296591012461 dTDP-D-glucose 4,6-dehydratase [Cell envelope biogenesis, outer membrane]; Region: RfbB; COG1088 296591012462 dTDP-D-glucose 4,6-dehydratase, extended (e) SDRs; Region: dTDP_GD_SDR_e; cd05246 296591012463 NAD binding site [chemical binding]; other site 296591012464 substrate binding site [chemical binding]; other site 296591012465 homodimer interface [polypeptide binding]; other site 296591012466 active site 296591012467 short chain dehydrogenase; Provisional; Region: PRK07201 296591012468 Pseudomonas fluorescens MupV-like, extended (e) SDRs; Region: MupV_like_SDR_e; cd05263 296591012469 putative NAD(P) binding site [chemical binding]; other site 296591012470 active site 296591012471 putative substrate binding site [chemical binding]; other site 296591012472 classical (c) SDRs; Region: SDR_c; cd05233 296591012473 NAD(P) binding site [chemical binding]; other site 296591012474 active site 296591012475 Poly(hydroxyalcanoate) granule associated protein (phasin); Region: Phasin; pfam05597 296591012476 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 296591012477 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 296591012478 Bacterial transcriptional repressor; Region: TetR; pfam13972 296591012479 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 296591012480 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 296591012481 Dolichyl-phosphate-mannose-protein mannosyltransferase; Region: PMT_2; pfam13231 296591012482 Uncharacterized protein family (UPF0104); Region: UPF0104; pfam03706 296591012483 phosphoribose diphosphate:decaprenyl-phosphate phosphoribosyltransferase; Provisional; Region: PRK12324 296591012484 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 296591012485 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 296591012486 putative ligand binding site [chemical binding]; other site 296591012487 Anaerobic dehydrogenases, typically selenocysteine-containing [Energy production and conversion]; Region: BisC; COG0243 296591012488 The MopB_3 CD includes a group of related uncharacterized bacterial and archaeal molybdopterin-binding oxidoreductase-like domains with a putative N-terminal iron-sulfur [4Fe-4S] cluster binding site and molybdopterin cofactor binding site. These members...; Region: MopB_3; cd02766 296591012489 putative [4Fe-4S] binding site [ion binding]; other site 296591012490 putative molybdopterin cofactor binding site [chemical binding]; other site 296591012491 The MopB_CT_3 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_3; cd02786 296591012492 putative molybdopterin cofactor binding site; other site 296591012493 Predicted aminopeptidase (DUF2265); Region: DUF2265; pfam10023 296591012494 Putative polyhydroxyalkanoic acid system protein (PHA_gran_rgn); Region: PHA_gran_rgn; pfam09650 296591012495 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591012496 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591012497 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_1; cd08421 296591012498 putative dimerization interface [polypeptide binding]; other site 296591012499 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 296591012500 CoA-transferase family III; Region: CoA_transf_3; pfam02515 296591012501 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 296591012502 active site 296591012503 catalytic residues [active] 296591012504 metal binding site [ion binding]; metal-binding site 296591012505 This conserved domain belongs to a superfamily including the bleomycin resistance protein, glyoxalase I, and type I ring-cleaving dioxygenases; Region: Glo_EDI_BRP_like_2; cd07253 296591012506 dimer interface [polypeptide binding]; other site 296591012507 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 296591012508 metal binding site [ion binding]; metal-binding site 296591012509 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3181 296591012510 Acyl CoA binding protein; Region: ACBP; pfam00887 296591012511 acyl-CoA binding pocket [chemical binding]; other site 296591012512 CoA binding site [chemical binding]; other site 296591012513 acyltransferase, WS/DGAT/MGAT; Region: acyl_WS_DGAT; TIGR02946 296591012514 Wax ester synthase-like Acyl-CoA acyltransferase domain; Region: WES_acyltransf; pfam03007 296591012515 Protein of unknown function (DUF1298); Region: DUF1298; pfam06974 296591012516 HEAT repeats; Region: HEAT_2; pfam13646 296591012517 pantothenate kinase; Reviewed; Region: PRK13329 296591012518 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 296591012519 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 296591012520 DNA binding residues [nucleotide binding] 296591012521 dimerization interface [polypeptide binding]; other site 296591012522 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 296591012523 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 296591012524 dimer interface [polypeptide binding]; other site 296591012525 phosphorylation site [posttranslational modification] 296591012526 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 296591012527 ATP binding site [chemical binding]; other site 296591012528 Mg2+ binding site [ion binding]; other site 296591012529 G-X-G motif; other site 296591012530 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 296591012531 active site 296591012532 phosphorylation site [posttranslational modification] 296591012533 intermolecular recognition site; other site 296591012534 dimerization interface [polypeptide binding]; other site 296591012535 hypothetical protein; Provisional; Region: PRK07179 296591012536 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 296591012537 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 296591012538 catalytic residue [active] 296591012539 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 296591012540 active site residue [active] 296591012541 polyphosphate:nucleotide phosphotransferase, PPK2 family; Region: PPK2_rel_1; TIGR03709 296591012542 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 296591012543 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 296591012544 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; cl01181 296591012545 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 296591012546 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 296591012547 methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom...; Region: MM_CoA_mut_B12_BD; cd02071 296591012548 B12 binding site [chemical binding]; other site 296591012549 cobalt ligand [ion binding]; other site 296591012550 Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]; Region: ArgK; COG1703 296591012551 The function of this protein family is unkown. The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and...; Region: ArgK-like; cd03114 296591012552 Walker A; other site 296591012553 Coenzyme B12-dependent-methylmalonyl coenzyme A (CoA) mutase (MCM)-like family; contains proteins similar to MCM, and the large subunit of Streptomyces coenzyme B12-dependent isobutyryl-CoA mutase (ICM). MCM catalyzes the isomerization of...; Region: MM_CoA_mutase; cl00817 296591012554 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 296591012555 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 296591012556 active site 296591012557 catalytic tetrad [active] 296591012558 Cupin domain; Region: Cupin_2; cl17218 296591012559 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 296591012560 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 296591012561 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 296591012562 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 296591012563 Cytochrome c, mono- and diheme variants [Energy production and conversion]; Region: CccA; COG2010 296591012564 Cytochrome c; Region: Cytochrom_C; pfam00034 296591012565 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 296591012566 Aerobic-type carbon monoxide dehydrogenase, small subunit CoxS/CutS homologs [Energy production and conversion]; Region: CoxS; COG2080 296591012567 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 296591012568 catalytic loop [active] 296591012569 iron binding site [ion binding]; other site 296591012570 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 296591012571 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 296591012572 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 296591012573 putative ligand binding site [chemical binding]; other site 296591012574 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 296591012575 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 296591012576 Walker A/P-loop; other site 296591012577 ATP binding site [chemical binding]; other site 296591012578 Q-loop/lid; other site 296591012579 ABC transporter signature motif; other site 296591012580 Walker B; other site 296591012581 D-loop; other site 296591012582 H-loop/switch region; other site 296591012583 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 296591012584 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 296591012585 Walker A/P-loop; other site 296591012586 ATP binding site [chemical binding]; other site 296591012587 Q-loop/lid; other site 296591012588 ABC transporter signature motif; other site 296591012589 Walker B; other site 296591012590 D-loop; other site 296591012591 H-loop/switch region; other site 296591012592 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 296591012593 TM-ABC transporter signature motif; other site 296591012594 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 296591012595 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 296591012596 TM-ABC transporter signature motif; other site 296591012597 Periplasmic solute-binding domain of active transport proteins; Region: PBP1_Arsenic_SBP_like; cd06330 296591012598 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 296591012599 putative ligand binding site [chemical binding]; other site 296591012600 Amino acid synthesis; Region: AA_synth; pfam06684 296591012601 Amino acid synthesis; Region: AA_synth; pfam06684 296591012602 hypothetical protein; Provisional; Region: PRK04334 296591012603 Ferredoxin [Energy production and conversion]; Region: COG1146 296591012604 4Fe-4S binding domain; Region: Fer4; pfam00037 296591012605 Domain of unknown function (DUF3470); Region: DUF3470; pfam11953 296591012606 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]; Region: Hmp; COG1018 296591012607 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 296591012608 FAD binding pocket [chemical binding]; other site 296591012609 FAD binding motif [chemical binding]; other site 296591012610 phosphate binding motif [ion binding]; other site 296591012611 beta-alpha-beta structure motif; other site 296591012612 NAD binding pocket [chemical binding]; other site 296591012613 pyrimidine utilization regulatory protein R; Region: RutR; TIGR03613 296591012614 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 296591012615 Amidohydrolase; Region: Amidohydro_5; pfam13594 296591012616 Amidohydrolase; Region: Amidohydro_4; pfam13147 296591012617 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; cd01292 296591012618 active site 296591012619 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 296591012620 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 296591012621 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 296591012622 Walker A/P-loop; other site 296591012623 ATP binding site [chemical binding]; other site 296591012624 Q-loop/lid; other site 296591012625 ABC transporter signature motif; other site 296591012626 Walker B; other site 296591012627 D-loop; other site 296591012628 H-loop/switch region; other site 296591012629 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 296591012630 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 296591012631 Walker A/P-loop; other site 296591012632 ATP binding site [chemical binding]; other site 296591012633 Q-loop/lid; other site 296591012634 ABC transporter signature motif; other site 296591012635 Walker B; other site 296591012636 D-loop; other site 296591012637 H-loop/switch region; other site 296591012638 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 296591012639 Periplasmic solute-binding domain of active transport proteins that belong to the type I periplasmic binding fold protein family; Region: PBP1_SBP_like_1; cd06327 296591012640 putative ligand binding site [chemical binding]; other site 296591012641 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 296591012642 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 296591012643 TM-ABC transporter signature motif; other site 296591012644 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 296591012645 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 296591012646 TM-ABC transporter signature motif; other site 296591012647 transcriptional activator FtrA; Provisional; Region: ftrA; PRK09393 296591012648 AraC transcriptional regulators having a Type 1 glutamine amidotransferase (GATase1)-like domain; Region: GATase1_AraC_1; cd03137 296591012649 conserved cys residue [active] 296591012650 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 296591012651 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 296591012652 Isochorismatase family; Region: Isochorismatase; pfam00857 296591012653 catalytic triad [active] 296591012654 conserved cis-peptide bond; other site 296591012655 hypothetical protein; Provisional; Region: PRK06208 296591012656 intersubunit interface [polypeptide binding]; other site 296591012657 active site 296591012658 Zn2+ binding site [ion binding]; other site 296591012659 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 296591012660 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591012661 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 296591012662 dimerization interface [polypeptide binding]; other site 296591012663 substrate binding pocket [chemical binding]; other site 296591012664 Transcriptional regulator/sugar kinase [Transcription / Carbohydrate transport and metabolism]; Region: NagC; COG1940 296591012665 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 296591012666 Nucleotide-Binding Domain of the sugar kinase/HSP70/actin superfamily; Region: NBD_sugar-kinase_HSP70_actin; cl17037 296591012667 Protein of unknown function (DUF2905); Region: DUF2905; pfam11146 296591012668 Uncharacterized conserved protein [Function unknown]; Region: COG1565 296591012669 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591012670 short chain dehydrogenase; Provisional; Region: PRK09134 296591012671 NAD(P) binding site [chemical binding]; other site 296591012672 active site 296591012673 Dihydroneopterin aldolase; Region: FolB; smart00905 296591012674 active site 296591012675 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional; Region: PRK10696 296591012676 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 296591012677 Ligand Binding Site [chemical binding]; other site 296591012678 Domain of unknown function (DUF4136); Region: DUF4136; pfam13590 296591012679 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 296591012680 catalytic core [active] 296591012681 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Low Specificity D-Threonine Aldolase; Region: PLPDE_III_LS_D-TA; cd06819 296591012682 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 296591012683 dimer interface [polypeptide binding]; other site 296591012684 active site 296591012685 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 296591012686 substrate binding site [chemical binding]; other site 296591012687 catalytic residue [active] 296591012688 Holliday junction DNA helicase RuvB; Reviewed; Region: ruvB; PRK00080 296591012689 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 296591012690 Walker A motif; other site 296591012691 ATP binding site [chemical binding]; other site 296591012692 Walker B motif; other site 296591012693 arginine finger; other site 296591012694 Holliday junction DNA helicase ruvB C-terminus; Region: RuvB_C; pfam05491 296591012695 Holliday junction DNA helicase RuvA; Reviewed; Region: ruvA; PRK00116 296591012696 RuvA N terminal domain; Region: RuvA_N; pfam01330 296591012697 RuvA, C-terminal domain; Region: RuvA_C; pfam07499 296591012698 Phosphate starvation-inducible protein PhoH, predicted ATPase [Signal transduction mechanisms]; Region: PhoH; COG1702 296591012699 PhoH-like protein; Region: PhoH; pfam02562 296591012700 Uncharacterized protein family UPF0054; Region: UPF0054; cl00402 296591012701 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 296591012702 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 296591012703 dimerization interface [polypeptide binding]; other site 296591012704 putative tRNAtyr binding site [nucleotide binding]; other site 296591012705 putative active site [active] 296591012706 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]; Region: MMT1; COG0053 296591012707 cation diffusion facilitator family transporter; Region: CDF; TIGR01297 296591012708 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 296591012709 dimer interface [polypeptide binding]; other site 296591012710 phosphorylation site [posttranslational modification] 296591012711 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 296591012712 ATP binding site [chemical binding]; other site 296591012713 Mg2+ binding site [ion binding]; other site 296591012714 G-X-G motif; other site 296591012715 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 296591012716 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 296591012717 active site 296591012718 phosphorylation site [posttranslational modification] 296591012719 intermolecular recognition site; other site 296591012720 dimerization interface [polypeptide binding]; other site 296591012721 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 296591012722 DNA binding residues [nucleotide binding] 296591012723 dimerization interface [polypeptide binding]; other site 296591012724 Domain of unknown function (DUF336); Region: DUF336; cl01249 296591012725 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 296591012726 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 296591012727 Ankyrin repeats (3 copies); Region: Ank_2; pfam12796 296591012728 PIN domain of the Rv0301 toxin of Mycobacterium tuberculosis and other uncharacterized, annotated PilT protein domain proteins; Region: PIN_MtRv0301; cd09882 296591012729 putative active site [active] 296591012730 Uncharacterized protein conserved in bacteria (DUF2191); Region: DUF2191; pfam09957 296591012731 tyrosyl-tRNA synthetase; Validated; Region: PRK05912 296591012732 catalytic core domain of tyrosinyl-tRNA synthetase; Region: TyrRS_core; cd00805 296591012733 active site 296591012734 HIGH motif; other site 296591012735 dimer interface [polypeptide binding]; other site 296591012736 KMSKS motif; other site 296591012737 Membrane proteins related to metalloendopeptidases [Cell envelope biogenesis, outer membrane]; Region: NlpD; COG0739 296591012738 Peptidase family M23; Region: Peptidase_M23; pfam01551 296591012739 anhydro-N-acetylmuramic acid kinase; Reviewed; Region: anmK; PRK09585 296591012740 iron-sulfur cluster insertion protein ErpA; Provisional; Region: PRK13623 296591012741 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 296591012742 Integral membrane protein CcmA involved in cell shape determination [Cell envelope biogenesis, outer membrane]; Region: CcmA; COG1664 296591012743 30S ribosomal protein S9; Reviewed; Region: rpsI; PRK00132 296591012744 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 296591012745 23S rRNA interface [nucleotide binding]; other site 296591012746 L3 interface [polypeptide binding]; other site 296591012747 Protein involved in catabolism of external DNA [General function prediction only]; Region: ComJ; COG2961 296591012748 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 296591012749 S-adenosylmethionine binding site [chemical binding]; other site 296591012750 Cytochrome oxidase subunit II; Region: Cyto_ox_2; pfam02322 296591012751 cytochrome d ubiquinol oxidase subunit 2; Provisional; Region: PRK15003; cl12219 296591012752 cytochrome d terminal oxidase subunit 1; Provisional; Region: PRK15097 296591012753 Bacterial Cytochrome Ubiquinol Oxidase; Region: Bac_Ubq_Cox; pfam01654 296591012754 Predicted transcriptional regulators [Transcription]; Region: COG1510 296591012755 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 296591012756 dimerization interface [polypeptide binding]; other site 296591012757 putative DNA binding site [nucleotide binding]; other site 296591012758 putative Zn2+ binding site [ion binding]; other site 296591012759 BON domain; Region: BON; pfam04972 296591012760 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_3; cd08896 296591012761 putative hydrophobic ligand binding site [chemical binding]; other site 296591012762 Predicted membrane protein [Function unknown]; Region: COG2259 296591012763 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591012764 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 296591012765 hypothetical protein; Provisional; Region: PRK07236 296591012766 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 296591012767 active site 296591012768 Peptide arylation enzymes [Secondary metabolites biosynthesis, transport, and catabolism]; Region: EntE; COG1021 296591012769 2,3-dihydroxybenzoate-AMP ligase; Region: 23DHB-AMP_lg; cd05920 296591012770 acyl-activating enzyme (AAE) consensus motif; other site 296591012771 active site 296591012772 AMP binding site [chemical binding]; other site 296591012773 substrate binding site [chemical binding]; other site 296591012774 N-terminal domain of Sphingobium chlorophenolicum 2,6-dichloro-p-hydroquinone 1,2-dioxygenase (PcpA), and similar proteins; Region: PcpA_N_like; cd08346 296591012775 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 296591012776 Zn binding site [ion binding]; other site 296591012777 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 296591012778 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 296591012779 Lipoproteins [Cell envelope biogenesis, outer membrane]; Region: RlpA; COG0797 296591012780 Rare lipoprotein A (RlpA)-like double-psi beta-barrel; Region: DPBB_1; pfam03330 296591012781 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 296591012782 FAD binding site [chemical binding]; other site 296591012783 Predicted rRNA methylase [Translation, ribosomal structure and biogenesis]; Region: COG1189 296591012784 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 296591012785 RNA binding surface [nucleotide binding]; other site 296591012786 FtsJ-like methyltransferase; Region: FtsJ; pfam01728 296591012787 S-adenosyl-L-homocysteine hydrolase; Provisional; Region: PRK05476 296591012788 S-Adenosylhomocysteine Hydrolase, NAD-binding and catalytic domains; Region: SAHH; cd00401 296591012789 homotetramer interface [polypeptide binding]; other site 296591012790 ligand binding site [chemical binding]; other site 296591012791 catalytic site [active] 296591012792 NAD binding site [chemical binding]; other site 296591012793 HAD-superfamily hydrolase, subfamily IIB; Region: HAD-SF-IIB; TIGR01484 296591012794 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 296591012795 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 296591012796 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 296591012797 Transposase; Region: DEDD_Tnp_IS110; pfam01548 296591012798 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 296591012799 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 296591012800 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591012801 Excinuclease ATPase subunit [DNA replication, recombination, and repair]; Region: UvrA; COG0178 296591012802 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 296591012803 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 296591012804 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 296591012805 Walker A/P-loop; other site 296591012806 ATP binding site [chemical binding]; other site 296591012807 Q-loop/lid; other site 296591012808 ABC transporter signature motif; other site 296591012809 Walker B; other site 296591012810 D-loop; other site 296591012811 H-loop/switch region; other site 296591012812 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 296591012813 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 296591012814 Walker A/P-loop; other site 296591012815 ATP binding site [chemical binding]; other site 296591012816 Q-loop/lid; other site 296591012817 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 296591012818 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 296591012819 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 296591012820 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 296591012821 putative ligand binding site [chemical binding]; other site 296591012822 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 296591012823 putative substrate translocation pore; other site 296591012824 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 296591012825 probable sodium:solute symporter, VC_2705 subfamily; Region: Na_symport_lg; TIGR03648 296591012826 Domain of unknown function (DUF4212); Region: DUF4212; pfam13937 296591012827 TPR repeat; Region: TPR_11; pfam13414 296591012828 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 296591012829 binding surface 296591012830 TPR motif; other site 296591012831 Na+/proline symporter [Amino acid transport and metabolism / General function prediction only]; Region: PutP; COG0591 296591012832 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 296591012833 Na binding site [ion binding]; other site 296591012834 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 296591012835 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 296591012836 dimer interface [polypeptide binding]; other site 296591012837 phosphorylation site [posttranslational modification] 296591012838 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 296591012839 ATP binding site [chemical binding]; other site 296591012840 Mg2+ binding site [ion binding]; other site 296591012841 G-X-G motif; other site 296591012842 Response regulator receiver domain; Region: Response_reg; pfam00072 296591012843 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 296591012844 active site 296591012845 phosphorylation site [posttranslational modification] 296591012846 intermolecular recognition site; other site 296591012847 dimerization interface [polypeptide binding]; other site 296591012848 DEDDh 3'-5' exonuclease domain family; Region: DEDDh; cd06127 296591012849 active site 296591012850 catalytic site [active] 296591012851 substrate binding site [chemical binding]; other site 296591012852 FOG: CBS domain [General function prediction only]; Region: COG0517 296591012853 This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains associated with either the CAP_ED (cAMP receptor protein effector domain) family of transcription factors and the DUF294 domain or the PB1 (Phox and Bem1p) domain; Region: CBS_pair_CAP-ED_DUF294_PBI_assoc2; cd04800 296591012854 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 296591012855 metal binding triad; other site 296591012856 Putative nucleotidyltransferase substrate binding domain; Region: DUF294_C; pfam10335 296591012857 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 296591012858 DsbA family, 2-hydroxychromene-2-carboxylate (HCCA) isomerase subfamily; HCCA isomerase is a glutathione (GSH) dependent enzyme involved in the naphthalene catabolic pathway. It converts HCCA, a hemiketal formed spontaneously after ring cleavage of 1; Region: DsbA_HCCA_Iso; cd03022 296591012859 putative catalytic residue [active] 296591012860 This CD, composed mainly of bacterial single-domain proteins, includes the Thermus thermophilus (Tt) YbaK-like protein, a homolog of the trans-acting Escherichia coli YbaK Cys-tRNA(Pro) deacylase and the Agrobacterium tumefaciens ProX Ala-tRNA(Pro)...; Region: ProX_deacylase; cd04333 296591012861 putative deacylase active site [active] 296591012862 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 296591012863 Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]; Region: LeuA; COG0119 296591012864 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 296591012865 active site 296591012866 catalytic residues [active] 296591012867 metal binding site [ion binding]; metal-binding site 296591012868 bifunctional glyoxylate/hydroxypyruvate reductase A; Provisional; Region: ghrA; PRK15469 296591012869 Putative glycerate dehydrogenase and related proteins of the D-specific 2-hydroxy dehydrogenase family; Region: GDH_like_2; cd12164 296591012870 putative ligand binding site [chemical binding]; other site 296591012871 NAD binding site [chemical binding]; other site 296591012872 dimerization interface [polypeptide binding]; other site 296591012873 catalytic site [active] 296591012874 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 296591012875 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 296591012876 ATP-grasp domain; Region: ATP-grasp_4; cl17255 296591012877 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 296591012878 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 296591012879 carboxyltransferase (CT) interaction site; other site 296591012880 biotinylation site [posttranslational modification]; other site 296591012881 Domain of unknown function (DUF4126); Region: DUF4126; pfam13548 296591012882 enoyl-CoA hydratase; Provisional; Region: PRK05995 296591012883 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 296591012884 substrate binding site [chemical binding]; other site 296591012885 oxyanion hole (OAH) forming residues; other site 296591012886 trimer interface [polypeptide binding]; other site 296591012887 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 296591012888 AMP-binding domain protein; Validated; Region: PRK08315 296591012889 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 296591012890 Uncharacterized subfamily of fatty acid CoA ligase (FACL); Region: FACL_like_2; cd05917 296591012891 acyl-activating enzyme (AAE) consensus motif; other site 296591012892 putative AMP binding site [chemical binding]; other site 296591012893 putative active site [active] 296591012894 putative CoA binding site [chemical binding]; other site 296591012895 Arabinose-binding domain of AraC transcription regulator, N-term; Region: Arabinose_bd; pfam12625 296591012896 Helix-turn-helix domain; Region: HTH_18; pfam12833 296591012897 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 296591012898 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 296591012899 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 296591012900 putative C-terminal domain interface [polypeptide binding]; other site 296591012901 putative GSH binding site (G-site) [chemical binding]; other site 296591012902 putative dimer interface [polypeptide binding]; other site 296591012903 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 296591012904 N-terminal domain interface [polypeptide binding]; other site 296591012905 dimer interface [polypeptide binding]; other site 296591012906 substrate binding pocket (H-site) [chemical binding]; other site 296591012907 PBP superfamily domain; Region: PBP_like_2; cl17296 296591012908 Transmembrane secretion effector; Region: MFS_3; pfam05977 296591012909 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 296591012910 putative substrate translocation pore; other site 296591012911 Protein of unknown function (DUF3297); Region: DUF3297; pfam11730 296591012912 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591012913 Protein of unknown function (DUF1446); Region: DUF1446; pfam07287 296591012914 Formyltransferase, catalytic core domain; Region: FMT_core; cl00395 296591012915 active site 296591012916 substrate binding site [chemical binding]; other site 296591012917 cosubstrate binding site; other site 296591012918 catalytic site [active] 296591012919 ACT domain; Region: ACT_6; pfam13740 296591012920 Glycine cleavage system regulatory protein [Amino acid transport and metabolism]; Region: GcvR; COG2716 296591012921 ACT domains that comprise the Glycine Cleavage System Transcriptional Repressor (GcvR) protein, and other related domains; Region: ACT_GcvR_2; cd04869 296591012922 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]; Region: COG0075 296591012923 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 296591012924 catalytic residue [active] 296591012925 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3795 296591012926 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 296591012927 Glutathione S-transferase, N-terminal domain; Region: GST_N_3; pfam13417 296591012928 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 296591012929 N-terminal domain interface [polypeptide binding]; other site 296591012930 Predicted membrane protein [Function unknown]; Region: COG2259 296591012931 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591012932 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591012933 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 296591012934 dimerization interface [polypeptide binding]; other site 296591012935 Cupin; Region: Cupin_6; pfam12852 296591012936 AraC-type DNA-binding domain-containing proteins [Transcription]; Region: AraC; COG2207 296591012937 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 296591012938 Peroxiredoxin (PRX)-like 2 family; hypothetical proteins that show sequence similarity to PRXs. Members of this group contain a CXXC motif, similar to TRX. The second cysteine in the motif corresponds to the peroxidatic cysteine of PRX, however, these...; Region: PRX_like2; cd02970 296591012939 putative catalytic residues [active] 296591012940 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 296591012941 hypothetical protein; Provisional; Region: PRK01842 296591012942 Polysulfide-sulfurtransferase - Rhodanese Homology Domain. This domain is believed to serve as a polysulfide binding and transferase domain in anaerobic gram-negative bacteria, functioning in oxidative phosphorylation with polysulfide-sulfur as a...; Region: Polysulfide_ST; cd01447 296591012943 active site 296591012944 catalytic residue [active] 296591012945 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 296591012946 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 296591012947 active site 296591012948 carbonyl reductase sniffer-like, classical (c) SDRs; Region: carb_red_sniffer_like_SDR_c; cd05325 296591012949 C factor cell-cell signaling protein; Provisional; Region: PRK09009 296591012950 NADP binding site [chemical binding]; other site 296591012951 homodimer interface [polypeptide binding]; other site 296591012952 active site 296591012953 acetyl-CoA acetyltransferase; Provisional; Region: PRK06954 296591012954 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 296591012955 dimer interface [polypeptide binding]; other site 296591012956 active site 296591012957 bifunctional isocitrate dehydrogenase kinase/phosphatase protein; Validated; Region: aceK; PRK02946 296591012958 Isocitrate dehydrogenase kinase/phosphatase [Signal transduction mechanisms]; Region: COG4579 296591012959 Carbonic anhydrases (CA) are zinc-containing enzymes that catalyze the reversible hydration of carbon dioxide in a two-step mechanism in which the nucleophilic attack of a zinc-bound hydroxide ion on carbon dioxide is followed by the regeneration of an...; Region: beta_CA_cladeA; cd00883 296591012960 active site clefts [active] 296591012961 zinc binding site [ion binding]; other site 296591012962 dimer interface [polypeptide binding]; other site 296591012963 Isovaleryl-CoA dehydrogenase; Region: IVD; cd01156 296591012964 isovaleryl-CoA dehydrogenase; Region: PLN02519 296591012965 substrate binding site [chemical binding]; other site 296591012966 FAD binding site [chemical binding]; other site 296591012967 catalytic base [active] 296591012968 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 296591012969 CoenzymeA binding site [chemical binding]; other site 296591012970 subunit interaction site [polypeptide binding]; other site 296591012971 PHB binding site; other site 296591012972 Helix-Turn-Helix DNA binding domain of the regulatory protein GnyR; Region: HTH_GnyR; cd04776 296591012973 Predicted transcriptional regulators [Transcription]; Region: SoxR; COG0789 296591012974 DNA binding residues [nucleotide binding] 296591012975 putative dimer interface [polypeptide binding]; other site 296591012976 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 296591012977 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 296591012978 D-amino acid dehydrogenase small subunit; Provisional; Region: PRK12409 296591012979 hydroxyglutarate oxidase; Provisional; Region: PRK11728 296591012980 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 296591012981 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 296591012982 putative active site [active] 296591012983 heme pocket [chemical binding]; other site 296591012984 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 296591012985 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 296591012986 putative active site [active] 296591012987 heme pocket [chemical binding]; other site 296591012988 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 296591012989 dimer interface [polypeptide binding]; other site 296591012990 phosphorylation site [posttranslational modification] 296591012991 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 296591012992 ATP binding site [chemical binding]; other site 296591012993 Mg2+ binding site [ion binding]; other site 296591012994 G-X-G motif; other site 296591012995 Helix-Turn-Helix DNA binding domain of truncated MerR-like proteins; Region: HTH_MerR-trunc; cd04762 296591012996 DNA binding residues [nucleotide binding] 296591012997 Response regulator receiver domain; Region: Response_reg; pfam00072 296591012998 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 296591012999 active site 296591013000 phosphorylation site [posttranslational modification] 296591013001 intermolecular recognition site; other site 296591013002 dimerization interface [polypeptide binding]; other site 296591013003 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 296591013004 dimerization interface [polypeptide binding]; other site 296591013005 PAS fold; Region: PAS_4; pfam08448 296591013006 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 296591013007 PAS fold; Region: PAS_3; pfam08447 296591013008 putative active site [active] 296591013009 heme pocket [chemical binding]; other site 296591013010 PAS fold; Region: PAS_3; pfam08447 296591013011 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 296591013012 heme pocket [chemical binding]; other site 296591013013 putative active site [active] 296591013014 PAS domain; Region: PAS_9; pfam13426 296591013015 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 296591013016 putative active site [active] 296591013017 heme pocket [chemical binding]; other site 296591013018 PAS domain S-box; Region: sensory_box; TIGR00229 296591013019 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 296591013020 putative active site [active] 296591013021 heme pocket [chemical binding]; other site 296591013022 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 296591013023 Domain present in phytochromes and cGMP-specific phosphodiesterases; Region: GAF; smart00065 296591013024 PAS domain S-box; Region: sensory_box; TIGR00229 296591013025 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 296591013026 putative active site [active] 296591013027 heme pocket [chemical binding]; other site 296591013028 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 296591013029 dimer interface [polypeptide binding]; other site 296591013030 phosphorylation site [posttranslational modification] 296591013031 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 296591013032 ATP binding site [chemical binding]; other site 296591013033 Mg2+ binding site [ion binding]; other site 296591013034 G-X-G motif; other site 296591013035 Response regulator receiver domain; Region: Response_reg; pfam00072 296591013036 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 296591013037 active site 296591013038 phosphorylation site [posttranslational modification] 296591013039 intermolecular recognition site; other site 296591013040 dimerization interface [polypeptide binding]; other site 296591013041 Protein of unknown function DUF45; Region: DUF45; pfam01863 296591013042 1-acyl-sn-glycerol-3-phosphate acyltransferase [Lipid metabolism]; Region: PlsC; COG0204 296591013043 Lysophospholipid Acyltransferases (LPLATs) of Glycerophospholipid Biosynthesis: AGPAT-like; Region: LPLAT_AGPAT-like; cd07989 296591013044 putative acyl-acceptor binding pocket; other site 296591013045 D,D-heptose 1,7-bisphosphate phosphatase; Validated; Region: PRK08942 296591013046 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 296591013047 active site 296591013048 motif I; other site 296591013049 motif II; other site 296591013050 glycyl-tRNA synthetase subunit beta; Validated; Region: glyS; PRK01233 296591013051 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 296591013052 dimer interface [polypeptide binding]; other site 296591013053 motif 1; other site 296591013054 active site 296591013055 motif 2; other site 296591013056 motif 3; other site 296591013057 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591013058 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591013059 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 296591013060 putative effector binding pocket; other site 296591013061 dimerization interface [polypeptide binding]; other site 296591013062 short chain dehydrogenase; Provisional; Region: PRK06500 296591013063 classical (c) SDRs; Region: SDR_c; cd05233 296591013064 NAD(P) binding site [chemical binding]; other site 296591013065 active site 296591013066 Type II (periplasmic) bacterial L-asparaginase; Region: L-asparaginase_II; cd08964 296591013067 active site 296591013068 homodimer interface [polypeptide binding]; other site 296591013069 homotetramer interface [polypeptide binding]; other site 296591013070 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591013071 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591013072 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 296591013073 dimerization interface [polypeptide binding]; other site 296591013074 apolipoprotein N-acyltransferase; Reviewed; Region: lnt; PRK00302 296591013075 Apolipoprotein N-acyl transferase (class 9 nitrilases); Region: ALP_N-acyl_transferase; cd07571 296591013076 putative active site [active] 296591013077 catalytic triad [active] 296591013078 putative dimer interface [polypeptide binding]; other site 296591013079 Putative Mg2+ and Co2+ transporter CorC [Inorganic ion transport and metabolism]; Region: CorC; COG4535 296591013080 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 296591013081 Transporter associated domain; Region: CorC_HlyC; smart01091 296591013082 Acetyltransferase (GNAT) domain; Region: Acetyltransf_3; pfam13302 296591013083 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 296591013084 Coenzyme A binding pocket [chemical binding]; other site 296591013085 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 296591013086 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 296591013087 putative DNA binding site [nucleotide binding]; other site 296591013088 putative Zn2+ binding site [ion binding]; other site 296591013089 AsnC family; Region: AsnC_trans_reg; pfam01037 296591013090 4-hydroxyphenylpyruvate dioxygenase and related hemolysins [Amino acid transport and metabolism / General function prediction only]; Region: COG3185 296591013091 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 296591013092 dimer interface [polypeptide binding]; other site 296591013093 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 296591013094 active site 296591013095 Fe binding site [ion binding]; other site 296591013096 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 296591013097 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 296591013098 substrate binding pocket [chemical binding]; other site 296591013099 membrane-bound complex binding site; other site 296591013100 hinge residues; other site 296591013101 Prokaryotic phenylalanine-4-hydroxylase (pro_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes the eukaryotic proteins, phenylalanine-4-hydroxylase (eu_PheOH); Region: pro_PheOH; cd03348 296591013102 cofactor binding site; other site 296591013103 metal binding site [ion binding]; metal-binding site 296591013104 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 296591013105 cyclase homology domain; Region: CHD; cd07302 296591013106 nucleotidyl binding site; other site 296591013107 metal binding site [ion binding]; metal-binding site 296591013108 dimer interface [polypeptide binding]; other site 296591013109 Predicted integral membrane protein [Function unknown]; Region: COG5616 296591013110 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 296591013111 TPR motif; other site 296591013112 TPR repeat; Region: TPR_11; pfam13414 296591013113 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 296591013114 TPR motif; other site 296591013115 binding surface 296591013116 PAP2_like_1 proteins, a sub-family of PAP2, containing bacterial acid phosphatase, vanadium chloroperoxidases and vanadium bromoperoxidases; Region: PAP2_like_1; cd03380 296591013117 active site 296591013118 Peptidase domain in the S8 and S53 families; Region: Peptidases_S8_S53; cl10459 296591013119 active site 296591013120 catalytic residues [active] 296591013121 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 296591013122 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 296591013123 ligand binding site [chemical binding]; other site 296591013124 flexible hinge region; other site 296591013125 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 296591013126 non-specific DNA interactions [nucleotide binding]; other site 296591013127 DNA binding site [nucleotide binding] 296591013128 sequence specific DNA binding site [nucleotide binding]; other site 296591013129 putative cAMP binding site [chemical binding]; other site 296591013130 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 296591013131 helix_turn_helix, Lux Regulon; Region: HTH_LUXR; smart00421 296591013132 DNA binding residues [nucleotide binding] 296591013133 dimerization interface [polypeptide binding]; other site 296591013134 Putative F0F1-ATPase subunit (ATPase_gene1); Region: ATPase_gene1; cl09754 296591013135 PGAP1-like protein; Region: PGAP1; pfam07819 296591013136 GMC oxidoreductase; Region: GMC_oxred_N; pfam00732 296591013137 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 296591013138 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 296591013139 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 296591013140 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 296591013141 acyl-activating enzyme (AAE) consensus motif; other site 296591013142 putative AMP binding site [chemical binding]; other site 296591013143 putative active site [active] 296591013144 putative CoA binding site [chemical binding]; other site 296591013145 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 296591013146 Aerobic-type carbon monoxide dehydrogenase, large subunit CoxL/CutL homologs [Energy production and conversion]; Region: CoxL; COG1529 296591013147 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 296591013148 Aldehyde oxidase and xanthine dehydrogenase, a/b hammerhead domain; Region: Ald_Xan_dh_C; smart01008 296591013149 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 296591013150 Molybdopterin-binding domain of aldehyde dehydrogenase; Region: Ald_Xan_dh_C2; pfam02738 296591013151 4-hydroxybenzoyl-CoA reductase, gamma subunit; Region: 4hydroxCoAred; TIGR03193 296591013152 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 296591013153 catalytic loop [active] 296591013154 iron binding site [ion binding]; other site 296591013155 [2Fe-2S] binding domain; Region: Fer2_2; pfam01799 296591013156 ABC transporter ATPase component; Reviewed; Region: PRK11147 296591013157 ATP-binding cassette domain of the drug resistance transporter and related proteins, subfamily A; Region: ABC_DR_subfamily_A; cd03230 296591013158 Walker A/P-loop; other site 296591013159 ATP binding site [chemical binding]; other site 296591013160 Q-loop/lid; other site 296591013161 ABC transporter signature motif; other site 296591013162 Walker B; other site 296591013163 D-loop; other site 296591013164 H-loop/switch region; other site 296591013165 ABC transporter; Region: ABC_tran_2; pfam12848 296591013166 ATP-binding cassette domain of elongation factor 3, subfamily F; Region: ABCF_EF-3; cd03221 296591013167 Putative catalytic domain, repeat 1, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_1; cd09111 296591013168 PLD-like domain; Region: PLDc_2; pfam13091 296591013169 putative active site [active] 296591013170 catalytic site [active] 296591013171 Putative catalytic domain, repeat 2, of Escherichia coli uncharacterized protein ymdC and similar proteins; Region: PLDc_ymdC_like_2; cd09113 296591013172 PLD-like domain; Region: PLDc_2; pfam13091 296591013173 putative active site [active] 296591013174 catalytic site [active] 296591013175 Cupin domain; Region: Cupin_2; cl17218 296591013176 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 296591013177 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591013178 DNA-binding site [nucleotide binding]; DNA binding site 296591013179 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 296591013180 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 296591013181 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591013182 homodimer interface [polypeptide binding]; other site 296591013183 catalytic residue [active] 296591013184 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 296591013185 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 296591013186 EamA-like transporter family; Region: EamA; pfam00892 296591013187 EamA-like transporter family; Region: EamA; pfam00892 296591013188 Domain of unknown function (DUF4188); Region: DUF4188; pfam13826 296591013189 Putative amidotransferase; Region: DUF4066; pfam13278 296591013190 conserved cys residue [active] 296591013191 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]; Region: COG0436 296591013192 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 296591013193 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591013194 homodimer interface [polypeptide binding]; other site 296591013195 catalytic residue [active] 296591013196 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 296591013197 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 296591013198 putative C-terminal domain interface [polypeptide binding]; other site 296591013199 putative GSH binding site (G-site) [chemical binding]; other site 296591013200 putative dimer interface [polypeptide binding]; other site 296591013201 C-terminal, alpha helical domain of an unknown subfamily 2 of Glutathione S-transferases; Region: GST_C_2; cd03180 296591013202 putative N-terminal domain interface [polypeptide binding]; other site 296591013203 putative dimer interface [polypeptide binding]; other site 296591013204 putative substrate binding pocket (H-site) [chemical binding]; other site 296591013205 Predicted epimerase, PhzC/PhzF homolog [General function prediction only]; Region: COG0384 296591013206 Glyoxalase-like domain; Region: Glyoxalase_3; pfam13468 296591013207 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 296591013208 Threonine dehydratase [Amino acid transport and metabolism]; Region: IlvA; COG1171 296591013209 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 296591013210 tetramer interface [polypeptide binding]; other site 296591013211 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591013212 catalytic residue [active] 296591013213 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 296591013214 catalytic core [active] 296591013215 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; cl11399 296591013216 transglutaminase; Provisional; Region: tgl; PRK03187 296591013217 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 296591013218 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 296591013219 putative DNA binding site [nucleotide binding]; other site 296591013220 putative Zn2+ binding site [ion binding]; other site 296591013221 AsnC family; Region: AsnC_trans_reg; pfam01037 296591013222 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 296591013223 active site 296591013224 Aldo/keto reductase family; Region: Aldo_ket_red; pfam00248 296591013225 catalytic tetrad [active] 296591013226 MFS transport protein AraJ; Provisional; Region: PRK10091 296591013227 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 296591013228 putative substrate translocation pore; other site 296591013229 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591013230 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591013231 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_10; cd08480 296591013232 putative effector binding pocket; other site 296591013233 putative dimerization interface [polypeptide binding]; other site 296591013234 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 296591013235 DNA-binding transcriptional activator KdpE; Provisional; Region: PRK10529 296591013236 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 296591013237 active site 296591013238 phosphorylation site [posttranslational modification] 296591013239 intermolecular recognition site; other site 296591013240 dimerization interface [polypeptide binding]; other site 296591013241 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 296591013242 DNA binding site [nucleotide binding] 296591013243 Domain of unknown function (DUF4118); Region: DUF4118; pfam13493 296591013244 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 296591013245 dimer interface [polypeptide binding]; other site 296591013246 phosphorylation site [posttranslational modification] 296591013247 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 296591013248 ATP binding site [chemical binding]; other site 296591013249 Mg2+ binding site [ion binding]; other site 296591013250 G-X-G motif; other site 296591013251 Creatinine amidohydrolase; Region: Creatininase; pfam02633 296591013252 B12 binding domain; Region: B12-binding; pfam02310 296591013253 B12 binding site [chemical binding]; other site 296591013254 Elongator protein 3, MiaB family, Radical SAM; Region: Elp3; smart00729 296591013255 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 296591013256 FeS/SAM binding site; other site 296591013257 Protein of unknown function (DUF4080); Region: DUF4080; pfam13311 296591013258 Disulphide bond corrector protein DsbC; Region: DsbC; cl15830 296591013259 Thiol:disulfide interchange protein [Posttranslational modification, protein turnover, chaperones / Energy production and conversion]; Region: COG4232 296591013260 Cytochrome C biogenesis protein transmembrane region; Region: DsbD; cl15788 296591013261 DsbD gamma family; DsbD gamma is the C-terminal periplasmic domain of the bacterial protein DsbD. It contains a CXXC motif in a TRX fold and shuttles the reducing potential from the membrane domain (DsbD beta) to the N-terminal periplasmic domain (DsbD...; Region: DsbDgamma; cd02953 296591013262 DsbD alpha interface [polypeptide binding]; other site 296591013263 catalytic residues [active] 296591013264 Predicted CoA-binding protein [General function prediction only]; Region: COG1832 296591013265 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 296591013266 S-adenosylmethionine binding site [chemical binding]; other site 296591013267 Methyltransferase domain; Region: Methyltransf_31; pfam13847 296591013268 RNA recognition motif (RRM) superfamily; Region: RRM_SF; cl17169 296591013269 GAF domain; Region: GAF; pfam01590 296591013270 PAS fold; Region: PAS_4; pfam08448 296591013271 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 296591013272 putative active site [active] 296591013273 heme pocket [chemical binding]; other site 296591013274 PAS domain; Region: PAS_9; pfam13426 296591013275 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 296591013276 putative active site [active] 296591013277 heme pocket [chemical binding]; other site 296591013278 c-di-GMP synthetase (diguanylate cyclase, GGDEF domain) [Signal transduction mechanisms]; Region: COG2199 296591013279 Diguanylate-cyclase (DGC) or GGDEF domain; Region: GGDEF; cd01949 296591013280 metal binding site [ion binding]; metal-binding site 296591013281 active site 296591013282 I-site; other site 296591013283 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 296591013284 methylcobalamin:coenzyme M methyltransferase; Validated; Region: PRK06252 296591013285 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 296591013286 substrate binding site [chemical binding]; other site 296591013287 active site 296591013288 primosome assembly protein PriA; Validated; Region: PRK05580 296591013289 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 296591013290 ATP binding site [chemical binding]; other site 296591013291 putative Mg++ binding site [ion binding]; other site 296591013292 helicase superfamily c-terminal domain; Region: HELICc; smart00490 296591013293 Protein of unknown function (DUF1488); Region: DUF1488; pfam07369 296591013294 FeS assembly SUF system regulator, gammaproteobacterial; Region: suf_reg_Xantho; TIGR02944 296591013295 Transcriptional regulator; Region: Rrf2; pfam02082 296591013296 Transcriptional regulator; Region: Rrf2; cl17282 296591013297 cysteine desulfurase activator complex subunit SufB; Provisional; Region: PRK11814 296591013298 putative ABC transporter; Region: ycf24; CHL00085 296591013299 FeS assembly ATPase SufC; Region: sufC; TIGR01978 296591013300 ABC-type transport system involved in Fe-S cluster assembly, ATPase component; Region: ABC_FeS_Assembly; cd03217 296591013301 Walker A/P-loop; other site 296591013302 ATP binding site [chemical binding]; other site 296591013303 Q-loop/lid; other site 296591013304 ABC transporter signature motif; other site 296591013305 Walker B; other site 296591013306 D-loop; other site 296591013307 H-loop/switch region; other site 296591013308 FeS assembly protein SufD; Region: sufD; TIGR01981 296591013309 Uncharacterized protein family (UPF0051); Region: UPF0051; pfam01458 296591013310 Selenocysteine lyase/Cysteine desulfurase [Posttranslational modification, protein turnover, chaperones]; Region: csdA; COG0520 296591013311 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 296591013312 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 296591013313 catalytic residue [active] 296591013314 NifU homolog involved in Fe-S cluster formation [Energy production and conversion]; Region: IscU; COG0822 296591013315 Iron-sulfur cluster scaffold-like proteins; Region: IscU_like; cd06664 296591013316 trimerization site [polypeptide binding]; other site 296591013317 active site 296591013318 FeS assembly SUF system protein; Region: SUF_assoc; TIGR02945 296591013319 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 296591013320 [2Fe-2S] cluster binding site [ion binding]; other site 296591013321 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 296591013322 PAS fold; Region: PAS_3; pfam08447 296591013323 putative active site [active] 296591013324 heme pocket [chemical binding]; other site 296591013325 PAS fold; Region: PAS_3; pfam08447 296591013326 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 296591013327 putative active site [active] 296591013328 heme pocket [chemical binding]; other site 296591013329 PAS fold; Region: PAS_4; pfam08448 296591013330 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 296591013331 putative active site [active] 296591013332 heme pocket [chemical binding]; other site 296591013333 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 296591013334 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 296591013335 putative active site [active] 296591013336 heme pocket [chemical binding]; other site 296591013337 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 296591013338 dimer interface [polypeptide binding]; other site 296591013339 phosphorylation site [posttranslational modification] 296591013340 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 296591013341 ATP binding site [chemical binding]; other site 296591013342 Mg2+ binding site [ion binding]; other site 296591013343 G-X-G motif; other site 296591013344 protein-L-isoaspartate O-methyltransferase; Reviewed; Region: pcm; PRK00312 296591013345 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 296591013346 S-adenosylmethionine binding site [chemical binding]; other site 296591013347 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 296591013348 S-adenosylmethionine binding site [chemical binding]; other site 296591013349 Arabinose efflux permease [Carbohydrate transport and metabolism]; Region: AraJ; COG2814 296591013350 Membrane transport protein; Region: Mem_trans; cl09117 296591013351 ATP-dependent DNA helicase Rep; Region: rep; TIGR01074 296591013352 Part of AAA domain; Region: AAA_19; pfam13245 296591013353 Family description; Region: UvrD_C_2; pfam13538 296591013354 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 296591013355 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 296591013356 substrate binding site [chemical binding]; other site 296591013357 dimerization interface [polypeptide binding]; other site 296591013358 active site 296591013359 calcium binding site [ion binding]; other site 296591013360 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591013361 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591013362 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 296591013363 dimerization interface [polypeptide binding]; other site 296591013364 beta alanine--pyruvate transaminase; Provisional; Region: PRK09221 296591013365 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 296591013366 inhibitor-cofactor binding pocket; inhibition site 296591013367 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591013368 catalytic residue [active] 296591013369 elongation factor G; Reviewed; Region: PRK00007 296591013370 Elongation factor G (EF-G) family involved in both the elongation and ribosome recycling phases of protein synthesis; Region: EF-G; cd01886 296591013371 G1 box; other site 296591013372 putative GEF interaction site [polypeptide binding]; other site 296591013373 GTP/Mg2+ binding site [chemical binding]; other site 296591013374 Switch I region; other site 296591013375 G2 box; other site 296591013376 G3 box; other site 296591013377 Switch II region; other site 296591013378 G4 box; other site 296591013379 G5 box; other site 296591013380 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 296591013381 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 296591013382 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 296591013383 NhaP-type Na+/H+ and K+/H+ antiporters [Inorganic ion transport and metabolism]; Region: NhaP; COG0025 296591013384 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591013385 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591013386 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 296591013387 putative effector binding pocket; other site 296591013388 dimerization interface [polypeptide binding]; other site 296591013389 Domain of unknown function (DUF4148); Region: DUF4148; pfam13663 296591013390 The Delta12 Fatty Acid Desaturase (Delta12-FADS)-like CD includes the integral-membrane enzymes, delta-12 acyl-lipid desaturases, oleate 12-hydroxylases, omega3 and omega6 fatty acid desaturases, and other related proteins, found in a wide range of...; Region: Delta12-FADS-like; cd03507 296591013391 putative di-iron ligands [ion binding]; other site 296591013392 fumarate/nitrate reduction transcriptional regulator; Provisional; Region: PRK11161 296591013393 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 296591013394 ligand binding site [chemical binding]; other site 296591013395 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 296591013396 putative switch regulator; other site 296591013397 non-specific DNA interactions [nucleotide binding]; other site 296591013398 DNA binding site [nucleotide binding] 296591013399 sequence specific DNA binding site [nucleotide binding]; other site 296591013400 putative cAMP binding site [chemical binding]; other site 296591013401 Response regulator receiver domain; Region: Response_reg; pfam00072 296591013402 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 296591013403 active site 296591013404 phosphorylation site [posttranslational modification] 296591013405 intermolecular recognition site; other site 296591013406 dimerization interface [polypeptide binding]; other site 296591013407 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 296591013408 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 296591013409 active site 296591013410 phosphorylation site [posttranslational modification] 296591013411 intermolecular recognition site; other site 296591013412 dimerization interface [polypeptide binding]; other site 296591013413 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 296591013414 DNA binding residues [nucleotide binding] 296591013415 dimerization interface [polypeptide binding]; other site 296591013416 PAS domain S-box; Region: sensory_box; TIGR00229 296591013417 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 296591013418 putative active site [active] 296591013419 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 296591013420 heme pocket [chemical binding]; other site 296591013421 Histidine kinase; Region: HisKA_3; pfam07730 296591013422 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 296591013423 ATP binding site [chemical binding]; other site 296591013424 Mg2+ binding site [ion binding]; other site 296591013425 G-X-G motif; other site 296591013426 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 296591013427 Ligand Binding Site [chemical binding]; other site 296591013428 FixH; Region: FixH; pfam05751 296591013429 cytochrome c oxidase accessory protein FixG; Region: ccoG_rdxA_fixG; TIGR02745 296591013430 4Fe-4S binding domain; Region: Fer4_5; pfam12801 296591013431 Ubp3 associated protein Bre5; Region: Bre5; pfam11614 296591013432 cytochrome c oxidase, cbb3-type, subunit III; Region: ccoP; TIGR00782 296591013433 Cytochrome c; Region: Cytochrom_C; pfam00034 296591013434 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 296591013435 Cytochrome cbb oxidase CcoQ. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction of O2...; Region: cbb3_Oxidase_CcoQ; cd01324 296591013436 Cbb3-type cytochrome oxidase, cytochrome c subunit [Energy production and conversion]; Region: CcoO; COG2993 296591013437 cbb3-type cytochrome c oxidase subunit II; Provisional; Region: PRK14487 296591013438 Cytochrome cbb3 oxidase subunit I. Cytochrome cbb3 oxidase, the terminal oxidase in the respiratory chains of proteobacteria, is a multi-chain transmembrane protein located in the cell membrane. Like other cytochrome oxidases, it catalyzes the reduction...; Region: cbb3_Oxidase_I; cd01661 296591013439 Low-spin heme binding site [chemical binding]; other site 296591013440 Cytochrome C and Quinol oxidase polypeptide I; Region: COX1; pfam00115 296591013441 Putative water exit pathway; other site 296591013442 Binuclear center (active site) [active] 296591013443 Putative proton exit pathway; other site 296591013444 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 296591013445 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 296591013446 metal-binding site [ion binding] 296591013447 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 296591013448 Soluble P-type ATPase [General function prediction only]; Region: COG4087 296591013449 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 296591013450 Ligand Binding Site [chemical binding]; other site 296591013451 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 296591013452 Ligand Binding Site [chemical binding]; other site 296591013453 Protein of unknown function (DUF3696); Region: DUF3696; pfam12476 296591013454 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 296591013455 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 296591013456 substrate binding pocket [chemical binding]; other site 296591013457 membrane-bound complex binding site; other site 296591013458 hinge residues; other site 296591013459 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591013460 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 296591013461 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 296591013462 trimer interface [polypeptide binding]; other site 296591013463 eyelet of channel; other site 296591013464 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591013465 nitrogen assimilation transcriptional regulator; Provisional; Region: PRK11233 296591013466 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591013467 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 296591013468 putative dimerization interface [polypeptide binding]; other site 296591013469 Bacterial extracellular solute-binding protein; Region: SBP_bac_11; pfam13531 296591013470 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 296591013471 Amidohydrolase; Region: Amidohydro_2; pfam04909 296591013472 hypothetical protein; Provisional; Region: PRK09262 296591013473 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 296591013474 2-pyrone-4,6-dicarboxylic acid (PDC) hydrolase hydrolyzes PDC to yield 4-oxalomesaconic acid (OMA) or its tautomer, 4-carboxy-2-hydroxymuconic acid (CHM). This reaction is part of the protocatechuate (PCA) 4,5-cleavage pathway. PCA is one of the most...; Region: PDC_hydrolase; cd01311 296591013475 active site 296591013476 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591013477 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 296591013478 Predicted Zn-dependent hydrolases of the beta-lactamase fold [General function prediction only]; Region: COG2220 296591013479 FecR protein; Region: FecR; pfam04773 296591013480 ATP-dependent protease La; Region: lon; TIGR00763 296591013481 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 296591013482 SIR2-like domain; Region: SIR2_2; pfam13289 296591013483 NAD(P) binding domain of amino acid dehydrogenase-like proteins; Region: NAD_bind_amino_acid_DH; cl17226 296591013484 Saccharopine dehydrogenase and related proteins [Amino acid transport and metabolism]; Region: LYS9; COG1748 296591013485 NAD(P) binding pocket [chemical binding]; other site 296591013486 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 296591013487 AsnC-type helix-turn-helix domain; Region: HTH_AsnC-type; pfam13404 296591013488 AsnC family; Region: AsnC_trans_reg; pfam01037 296591013489 ornithine cyclodeaminase; Validated; Region: PRK07589 296591013490 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 296591013491 Transposase and inactivated derivatives, IS30 family [DNA replication, recombination, and repair]; Region: Tra8; COG2826 296591013492 Helix-turn-helix domain; Region: HTH_38; pfam13936 296591013493 Homeodomain-like domain; Region: HTH_32; pfam13565 296591013494 Integrase core domain; Region: rve; pfam00665 296591013495 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_1; cd08508 296591013496 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 296591013497 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 296591013498 homotrimer interaction site [polypeptide binding]; other site 296591013499 putative active site [active] 296591013500 dipeptide transporter ATP-binding subunit; Provisional; Region: dppF; PRK11308 296591013501 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 296591013502 Walker A/P-loop; other site 296591013503 ATP binding site [chemical binding]; other site 296591013504 Q-loop/lid; other site 296591013505 ABC transporter signature motif; other site 296591013506 Walker B; other site 296591013507 D-loop; other site 296591013508 H-loop/switch region; other site 296591013509 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 296591013510 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 296591013511 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 296591013512 Walker A/P-loop; other site 296591013513 ATP binding site [chemical binding]; other site 296591013514 Q-loop/lid; other site 296591013515 ABC transporter signature motif; other site 296591013516 Walker B; other site 296591013517 D-loop; other site 296591013518 H-loop/switch region; other site 296591013519 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 296591013520 N-terminal TM domain of oligopeptide transport permease C; Region: OppC_N; pfam12911 296591013521 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 296591013522 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 296591013523 dimer interface [polypeptide binding]; other site 296591013524 conserved gate region; other site 296591013525 putative PBP binding loops; other site 296591013526 ABC-ATPase subunit interface; other site 296591013527 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 296591013528 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 296591013529 dimer interface [polypeptide binding]; other site 296591013530 conserved gate region; other site 296591013531 putative PBP binding loops; other site 296591013532 ABC-ATPase subunit interface; other site 296591013533 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 296591013534 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 296591013535 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 296591013536 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 296591013537 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 296591013538 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_1; cd08508 296591013539 Bacterial extracellular solute-binding proteins, family 5 Middle; Region: SBP_bac_5; pfam00496 296591013540 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 296591013541 putative aminophosphonate oxidoreductase; Region: Phn_aa_oxid; TIGR03329 296591013542 FAD dependent oxidoreductase; Region: DAO; pfam01266 296591013543 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591013544 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591013545 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 296591013546 dimerization interface [polypeptide binding]; other site 296591013547 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 296591013548 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591013549 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 296591013550 putative dimerization interface [polypeptide binding]; other site 296591013551 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 296591013552 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 296591013553 TPP-binding site [chemical binding]; other site 296591013554 dimer interface [polypeptide binding]; other site 296591013555 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 296591013556 PYR/PP interface [polypeptide binding]; other site 296591013557 dimer interface [polypeptide binding]; other site 296591013558 TPP binding site [chemical binding]; other site 296591013559 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 296591013560 transaldolase-like protein; Provisional; Region: PTZ00411 296591013561 Transaldolases including both TalA and TalB; Region: Transaldolase_TalAB; cd00957 296591013562 active site 296591013563 dimer interface [polypeptide binding]; other site 296591013564 catalytic residue [active] 296591013565 Bacterial extracellular solute-binding proteins, family 3; Region: SBP_bac_3; pfam00497 296591013566 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 296591013567 substrate binding pocket [chemical binding]; other site 296591013568 membrane-bound complex binding site; other site 296591013569 hinge residues; other site 296591013570 Possible lysine decarboxylase; Region: Lysine_decarbox; cl00695 296591013571 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 296591013572 dimer interface [polypeptide binding]; other site 296591013573 conserved gate region; other site 296591013574 putative PBP binding loops; other site 296591013575 ABC-ATPase subunit interface; other site 296591013576 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 296591013577 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 296591013578 ATP-binding cassette domain of the carbohydrate and solute transporters-like; Region: ABC_Carb_Solutes_like; cd03259 296591013579 Walker A/P-loop; other site 296591013580 ATP binding site [chemical binding]; other site 296591013581 Q-loop/lid; other site 296591013582 ABC transporter signature motif; other site 296591013583 Walker B; other site 296591013584 D-loop; other site 296591013585 H-loop/switch region; other site 296591013586 sulfate transport protein; Provisional; Region: cysT; CHL00187 296591013587 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 296591013588 dimer interface [polypeptide binding]; other site 296591013589 conserved gate region; other site 296591013590 putative PBP binding loops; other site 296591013591 ABC-ATPase subunit interface; other site 296591013592 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 296591013593 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591013594 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 296591013595 dimerization interface [polypeptide binding]; other site 296591013596 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 296591013597 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 296591013598 active site pocket [active] 296591013599 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 296591013600 dimer interface [polypeptide binding]; other site 296591013601 conserved gate region; other site 296591013602 putative PBP binding loops; other site 296591013603 ABC-ATPase subunit interface; other site 296591013604 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 296591013605 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 296591013606 dimer interface [polypeptide binding]; other site 296591013607 conserved gate region; other site 296591013608 ABC-ATPase subunit interface; other site 296591013609 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 296591013610 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; pfam01547 296591013611 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 296591013612 spermidine/putrescine ABC transporter ATP-binding subunit; Region: potA; TIGR01187 296591013613 Walker A/P-loop; other site 296591013614 ATP binding site [chemical binding]; other site 296591013615 Q-loop/lid; other site 296591013616 ABC transporter signature motif; other site 296591013617 Walker B; other site 296591013618 D-loop; other site 296591013619 H-loop/switch region; other site 296591013620 TOBE domain; Region: TOBE_2; pfam08402 296591013621 Xaa-Pro aminopeptidase [Amino acid transport and metabolism]; Region: PepP; COG0006 296591013622 Creatinase/Prolidase N-terminal domain; Region: Creatinase_N; pfam01321 296591013623 A family including aminopeptidase P, aminopeptidase M, and prolidase. Also known as metallopeptidase family M24. This family of enzymes is able to cleave amido-, imido- and amidino-containing bonds. Members exibit relatively narrow substrate specificity...; Region: APP_MetAP; cd01066 296591013624 active site 296591013625 Transcriptional regulators [Transcription]; Region: PurR; COG1609 296591013626 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 296591013627 DNA binding site [nucleotide binding] 296591013628 domain linker motif; other site 296591013629 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 296591013630 Asp-tRNAAsn/Glu-tRNAGln amidotransferase A subunit and related amidases [Translation, ribosomal structure and biogenesis]; Region: GatA; COG0154 296591013631 Amidase; Region: Amidase; cl11426 296591013632 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 296591013633 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 296591013634 non-specific DNA binding site [nucleotide binding]; other site 296591013635 salt bridge; other site 296591013636 sequence-specific DNA binding site [nucleotide binding]; other site 296591013637 pyridoxal phosphate-dependent acyltransferase, putative; Region: gly_Cac_T_rel; TIGR01825 296591013638 KBL_like; this family belongs to the pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to serine palmitoyltransferase (SPT), 5-aminolevulinate synthase (ALAS); Region: KBL_like; cd06454 296591013639 substrate-cofactor binding pocket; other site 296591013640 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591013641 catalytic residue [active] 296591013642 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591013643 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 296591013644 NAD(P) binding site [chemical binding]; other site 296591013645 active site 296591013646 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591013647 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591013648 The C-terminal substrate binding domain of an uncharacterized LysR-type transcriptional regulator, contains the type 2 periplasmic binding fold; Region: PBP2_LTTR_like_6; cd08423 296591013649 putative dimerization interface [polypeptide binding]; other site 296591013650 L-serine dehydratase, iron-sulfur-dependent, single chain form; Region: sda_mono; TIGR00720 296591013651 Serine dehydratase beta chain; Region: SDH_beta; pfam03315 296591013652 Serine dehydratase alpha chain; Region: SDH_alpha; pfam03313 296591013653 Glutaminase [Amino acid transport and metabolism]; Region: GlsA; COG2066 296591013654 Glutaminase; Region: Glutaminase; cl00907 296591013655 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 296591013656 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 296591013657 putative ligand binding site [chemical binding]; other site 296591013658 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 296591013659 homotrimer interaction site [polypeptide binding]; other site 296591013660 putative active site [active] 296591013661 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 296591013662 hydroxyglutarate oxidase; Provisional; Region: PRK11728 296591013663 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 296591013664 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 296591013665 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 296591013666 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 296591013667 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 296591013668 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 296591013669 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 296591013670 dimer interface [polypeptide binding]; other site 296591013671 conserved gate region; other site 296591013672 putative PBP binding loops; other site 296591013673 ABC-ATPase subunit interface; other site 296591013674 ABC-type Fe3+ transport system, permease component [Inorganic ion transport and metabolism]; Region: ThiP; COG1178 296591013675 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 296591013676 dimer interface [polypeptide binding]; other site 296591013677 conserved gate region; other site 296591013678 putative PBP binding loops; other site 296591013679 ABC-ATPase subunit interface; other site 296591013680 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 296591013681 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 296591013682 Walker A/P-loop; other site 296591013683 ATP binding site [chemical binding]; other site 296591013684 Q-loop/lid; other site 296591013685 ABC transporter signature motif; other site 296591013686 Walker B; other site 296591013687 D-loop; other site 296591013688 H-loop/switch region; other site 296591013689 TOBE domain; Region: TOBE_2; pfam08402 296591013690 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 296591013691 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 296591013692 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 296591013693 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591013694 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 296591013695 putative dimerization interface [polypeptide binding]; other site 296591013696 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 296591013697 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 296591013698 trimer interface [polypeptide binding]; other site 296591013699 eyelet of channel; other site 296591013700 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 296591013701 aspartate racemase; Region: asp_race; TIGR00035 296591013702 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591013703 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 296591013704 Argininosuccinate lyase [Amino acid transport and metabolism]; Region: ArgH; COG0165 296591013705 active sites [active] 296591013706 tetramer interface [polypeptide binding]; other site 296591013707 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 296591013708 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591013709 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 296591013710 putative dimerization interface [polypeptide binding]; other site 296591013711 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 296591013712 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 296591013713 putative ligand binding site [chemical binding]; other site 296591013714 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591013715 glutathione transporter ATP-binding protein; Provisional; Region: PRK10261 296591013716 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 296591013717 Walker A/P-loop; other site 296591013718 ATP binding site [chemical binding]; other site 296591013719 Q-loop/lid; other site 296591013720 ABC transporter signature motif; other site 296591013721 Walker B; other site 296591013722 D-loop; other site 296591013723 H-loop/switch region; other site 296591013724 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 296591013725 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 296591013726 Walker A/P-loop; other site 296591013727 ATP binding site [chemical binding]; other site 296591013728 Q-loop/lid; other site 296591013729 ABC transporter signature motif; other site 296591013730 Walker B; other site 296591013731 D-loop; other site 296591013732 H-loop/switch region; other site 296591013733 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; pfam08352 296591013734 argininosuccinate lyase; Provisional; Region: PRK00855 296591013735 Argininosuccinate lyase (argininosuccinase, ASAL); Region: Argininosuccinate_lyase; cd01359 296591013736 active sites [active] 296591013737 tetramer interface [polypeptide binding]; other site 296591013738 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 296591013739 The substrate-binding component of an uncharacterized ABC-type peptide import system Ylib contains the type 2 periplasmic binding fold; Region: PBP2_Ylib_like; cd08499 296591013740 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 296591013741 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 296591013742 dimer interface [polypeptide binding]; other site 296591013743 conserved gate region; other site 296591013744 ABC-ATPase subunit interface; other site 296591013745 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 296591013746 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 296591013747 dimer interface [polypeptide binding]; other site 296591013748 conserved gate region; other site 296591013749 ABC-ATPase subunit interface; other site 296591013750 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 296591013751 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591013752 The C-terminal substrate-domain of LysR-type transcriptional regulator, NocR, involved in the catabolism of nopaline, contains the type 2 periplasmic binding fold; Region: PBP2_NocR; cd08458 296591013753 putative dimerization interface [polypeptide binding]; other site 296591013754 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 296591013755 homotrimer interaction site [polypeptide binding]; other site 296591013756 putative active site [active] 296591013757 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 296591013758 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 296591013759 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 296591013760 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 296591013761 catalytic loop [active] 296591013762 iron binding site [ion binding]; other site 296591013763 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 296591013764 hydroxyglutarate oxidase; Provisional; Region: PRK11728 296591013765 ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]; Region: AppF; COG4608 296591013766 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 296591013767 Walker A/P-loop; other site 296591013768 ATP binding site [chemical binding]; other site 296591013769 Q-loop/lid; other site 296591013770 ABC transporter signature motif; other site 296591013771 Walker B; other site 296591013772 D-loop; other site 296591013773 H-loop/switch region; other site 296591013774 Oligopeptide/dipeptide transporter, C-terminal region; Region: oligo_HPY; cl07097 296591013775 ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppD; COG0444 296591013776 ATP-binding cassette domain of nickel/oligopeptides specific transporters; Region: ABC_NikE_OppD_transporters; cd03257 296591013777 Walker A/P-loop; other site 296591013778 ATP binding site [chemical binding]; other site 296591013779 Q-loop/lid; other site 296591013780 ABC transporter signature motif; other site 296591013781 Walker B; other site 296591013782 D-loop; other site 296591013783 H-loop/switch region; other site 296591013784 oligopeptide/dipeptide ABC transporter, ATP-binding protein, C-terminal domain; Region: oligo_HPY; TIGR01727 296591013785 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppC; COG1173 296591013786 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 296591013787 dimer interface [polypeptide binding]; other site 296591013788 conserved gate region; other site 296591013789 putative PBP binding loops; other site 296591013790 ABC-ATPase subunit interface; other site 296591013791 muconate and chloromuconate cycloisomerases; Region: mucon_cyclo; TIGR02534 296591013792 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 296591013793 octamer interface [polypeptide binding]; other site 296591013794 active site 296591013795 ABC-type dipeptide/oligopeptide/nickel transport systems, permease components [Amino acid transport and metabolism / Inorganic ion transport and metabolism]; Region: DppB; COG0601 296591013796 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 296591013797 dimer interface [polypeptide binding]; other site 296591013798 conserved gate region; other site 296591013799 putative PBP binding loops; other site 296591013800 ABC-ATPase subunit interface; other site 296591013801 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 296591013802 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 296591013803 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 296591013804 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 296591013805 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 296591013806 ABC-type dipeptide transport system, periplasmic component [Amino acid transport and metabolism]; Region: DdpA; COG0747 296591013807 The substrate-binding domain of an ABC-type nickel/oligopeptide-like import system contains the type 2 periplasmic binding fold; Region: PBP2_NikA_DppA_OppA_like; cd00995 296591013808 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 296591013809 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591013810 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 296591013811 putative dimerization interface [polypeptide binding]; other site 296591013812 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 296591013813 Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins; Region: PBP1_STKc_like; cd06326 296591013814 putative ligand binding site [chemical binding]; other site 296591013815 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 296591013816 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 296591013817 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 296591013818 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591013819 The C-terminal substrate binding domain of LysR, transcriptional regulator for lysine biosynthesis, contains the type 2 periplasmic binding fold; Region: PBP2_LysR; cd08456 296591013820 putative dimerization interface [polypeptide binding]; other site 296591013821 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 296591013822 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 296591013823 active site pocket [active] 296591013824 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 296591013825 homotrimer interaction site [polypeptide binding]; other site 296591013826 putative active site [active] 296591013827 Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]; Region: TrxB; COG0492 296591013828 BFD-like [2Fe-2S] binding domain; Region: Fer2_BFD; pfam04324 296591013829 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 296591013830 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 296591013831 hydroxyglutarate oxidase; Provisional; Region: PRK11728 296591013832 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 296591013833 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 296591013834 dimer interface [polypeptide binding]; other site 296591013835 conserved gate region; other site 296591013836 putative PBP binding loops; other site 296591013837 ABC-ATPase subunit interface; other site 296591013838 ABC-type spermidine/putrescine transport system, permease component II [Amino acid transport and metabolism]; Region: PotC; COG1177 296591013839 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 296591013840 dimer interface [polypeptide binding]; other site 296591013841 conserved gate region; other site 296591013842 putative PBP binding loops; other site 296591013843 ABC-ATPase subunit interface; other site 296591013844 ABC-type spermidine/putrescine transport systems, ATPase components [Amino acid transport and metabolism]; Region: PotA; COG3842 296591013845 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 296591013846 Walker A/P-loop; other site 296591013847 ATP binding site [chemical binding]; other site 296591013848 Q-loop/lid; other site 296591013849 ABC transporter signature motif; other site 296591013850 Walker B; other site 296591013851 D-loop; other site 296591013852 H-loop/switch region; other site 296591013853 TOBE domain; Region: TOBE_2; pfam08402 296591013854 Spermidine/putrescine-binding periplasmic protein [Amino acid transport and metabolism]; Region: PotD; COG0687 296591013855 ABC-type Fe3+ transport system, periplasmic component [Inorganic ion transport and metabolism]; Region: AfuA; COG1840 296591013856 DNA-binding transcriptional regulator LysR; Provisional; Region: PRK11013 296591013857 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591013858 The C-terminal substrate-domain of LysR-type transcriptional regulators involved in the catabolism of opines and that of related regulators, contains the type 2 periplasmic binding fold; Region: PBP2_LysR_opines_like; cd08415 296591013859 putative dimerization interface [polypeptide binding]; other site 296591013860 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591013861 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 296591013862 hydroxyglutarate oxidase; Provisional; Region: PRK11728 296591013863 2Fe-2S iron-sulfur cluster binding domain; Region: Fer2_4; pfam13510 296591013864 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 296591013865 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; pfam13450 296591013866 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 296591013867 homotrimer interaction site [polypeptide binding]; other site 296591013868 putative active site [active] 296591013869 haloacid dehalogenase-like hydrolase; Region: Hydrolase; pfam00702 296591013870 Integrase core domain; Region: rve; pfam00665 296591013871 Mu transposase, C-terminal; Region: Mu-transpos_C; pfam09299 296591013872 AAA domain; Region: AAA_22; pfam13401 296591013873 Response regulator receiver domain; Region: Response_reg; pfam00072 296591013874 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 296591013875 active site 296591013876 phosphorylation site [posttranslational modification] 296591013877 intermolecular recognition site; other site 296591013878 dimerization interface [polypeptide binding]; other site 296591013879 Bacterial regulatory protein, Fis family; Region: HTH_8; cl17420 296591013880 Signal transduction histidine kinase involved in nitrogen fixation and metabolism regulation [Signal transduction mechanisms]; Region: NtrY; COG5000 296591013881 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 296591013882 dimerization interface [polypeptide binding]; other site 296591013883 PAS domain; Region: PAS; smart00091 296591013884 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 296591013885 dimer interface [polypeptide binding]; other site 296591013886 phosphorylation site [posttranslational modification] 296591013887 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 296591013888 ATP binding site [chemical binding]; other site 296591013889 Mg2+ binding site [ion binding]; other site 296591013890 G-X-G motif; other site 296591013891 Domain of unknown function (DUF4390); Region: DUF4390; pfam14334 296591013892 16S rRNA methyltransferase B; Provisional; Region: PRK10901 296591013893 NusB family; Region: NusB; pfam01029 296591013894 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 296591013895 S-adenosylmethionine binding site [chemical binding]; other site 296591013896 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 296591013897 Flavocytochrome c sulphide dehydrogenase, flavin-binding; Region: FCSD-flav_bind; pfam09242 296591013898 Cytochrome c; Region: Cytochrom_C; cl11414 296591013899 Peptidase family M48; Region: Peptidase_M48; cl12018 296591013900 Uncharacterized conserved protein [Function unknown]; Region: LemA; COG1704 296591013901 DNA-directed RNA polymerase, beta' subunit/160 kD subunit [Transcription]; Region: RpoC; COG0086 296591013902 RNA polymerase Rpb1, domain 1; Region: RNA_pol_Rpb1_1; pfam04997 296591013903 RNA polymerase I subunit A N-terminus; Region: RPOLA_N; smart00663 296591013904 RNA polymerase Rpb1, domain 3; Region: RNA_pol_Rpb1_3; pfam04983 296591013905 RNA polymerase Rpb1, domain 4; Region: RNA_pol_Rpb1_4; pfam05000 296591013906 RNA polymerase Rpb1, domain 5; Region: RNA_pol_Rpb1_5; pfam04998 296591013907 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 296591013908 Rpb1 - Rpb6 interaction site [polypeptide binding]; other site 296591013909 Largest subunit of RNA polymerase (RNAP), C-terminal domain; Region: RNAP_largest_subunit_C; cl11429 296591013910 Largest subunit (beta') of Bacterial DNA-dependent RNA polymerase (RNAP), C-terminal domain; Region: RNAP_beta'_C; cd02655 296591013911 DNA binding site [nucleotide binding] 296591013912 Rpb1 (beta') - Rpb2 (beta) interaction site [polypeptide binding]; other site 296591013913 DNA-directed RNA polymerase subunit beta; Reviewed; Region: rpoB; PRK00405 296591013914 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 296591013915 RNA polymerase Rpb2, domain 2; Region: RNA_pol_Rpb2_2; pfam04561 296591013916 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 296591013917 RNA polymerase Rpb2, domain 6; Region: RNA_pol_Rpb2_6; pfam00562 296591013918 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 296591013919 RPB3 interaction site [polypeptide binding]; other site 296591013920 RPB1 interaction site [polypeptide binding]; other site 296591013921 RPB11 interaction site [polypeptide binding]; other site 296591013922 RPB10 interaction site [polypeptide binding]; other site 296591013923 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 296591013924 peripheral dimer interface [polypeptide binding]; other site 296591013925 core dimer interface [polypeptide binding]; other site 296591013926 L10 interface [polypeptide binding]; other site 296591013927 L11 interface [polypeptide binding]; other site 296591013928 putative EF-Tu interaction site [polypeptide binding]; other site 296591013929 putative EF-G interaction site [polypeptide binding]; other site 296591013930 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 296591013931 23S rRNA interface [nucleotide binding]; other site 296591013932 Interface with L7/L12 ribosomal proteins [polypeptide binding]; other site 296591013933 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 296591013934 mRNA/rRNA interface [nucleotide binding]; other site 296591013935 50S ribosomal protein L11; Validated; Region: rplK; PRK00140 296591013936 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 296591013937 23S rRNA interface [nucleotide binding]; other site 296591013938 L7/L12 interface [polypeptide binding]; other site 296591013939 putative thiostrepton binding site; other site 296591013940 L25 interface [polypeptide binding]; other site 296591013941 transcription antitermination protein NusG; Validated; Region: nusG; PRK05609 296591013942 Bacterial N-Utilization Substance G (NusG) N-terminal (NGN) domain, subgroup 1; Region: NGN_Bact_1; cd09891 296591013943 putative homodimer interface [polypeptide binding]; other site 296591013944 NusG contains an NGN domain at its N-terminus and KOW motif at its C-terminus; Region: KOW_NusG; cd06091 296591013945 heterodimer interface [polypeptide binding]; other site 296591013946 homodimer interface [polypeptide binding]; other site 296591013947 preprotein translocase subunit SecE; Reviewed; Region: secE; PRK05740 296591013948 elongation factor Tu; Reviewed; Region: PRK00049 296591013949 Elongation Factor Tu (EF-Tu) GTP-binding proteins; Region: EF_Tu; cd01884 296591013950 G1 box; other site 296591013951 GEF interaction site [polypeptide binding]; other site 296591013952 GTP/Mg2+ binding site [chemical binding]; other site 296591013953 Switch I region; other site 296591013954 G2 box; other site 296591013955 G3 box; other site 296591013956 Switch II region; other site 296591013957 G4 box; other site 296591013958 G5 box; other site 296591013959 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 296591013960 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 296591013961 Antibiotic Binding Site [chemical binding]; other site 296591013962 Family 1 of Uracil-DNA glycosylase (UDG) enzymes; Region: UDG_F1; cd10027 296591013963 ligand binding site [chemical binding]; other site 296591013964 active site 296591013965 UGI interface [polypeptide binding]; other site 296591013966 catalytic site [active] 296591013967 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 296591013968 active site 296591013969 ribulose/triose binding site [chemical binding]; other site 296591013970 phosphate binding site [ion binding]; other site 296591013971 substrate (anthranilate) binding pocket [chemical binding]; other site 296591013972 product (indole) binding pocket [chemical binding]; other site 296591013973 anthranilate phosphoribosyltransferase; Provisional; Region: trpD; PRK00188 296591013974 Glycosyl transferase family, helical bundle domain; Region: Glycos_trans_3N; pfam02885 296591013975 Glycosyl transferase family, a/b domain; Region: Glycos_transf_3; pfam00591 296591013976 Putative threonine efflux protein [Amino acid transport and metabolism]; Region: RhtB; COG1280 296591013977 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 296591013978 Threonine aldolase [Amino acid transport and metabolism]; Region: GLY1; COG2008 296591013979 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 296591013980 catalytic residue [active] 296591013981 para-aminobenzoate synthase component II; Provisional; Region: PRK08857 296591013982 Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase; Region: GATase1_Anthranilate_Synthase; cd01743 296591013983 glutamine binding [chemical binding]; other site 296591013984 catalytic triad [active] 296591013985 Chorismate mutase type II; Region: CM_2; smart00830 296591013986 anthranilate synthase component I; Provisional; Region: PRK13565 296591013987 Anthranilate synthase component I, N terminal region; Region: Anth_synt_I_N; pfam04715 296591013988 chorismate binding enzyme; Region: Chorismate_bind; pfam00425 296591013989 Chalcone-flavanone isomerase; Region: Chalcone; cl03589 296591013990 Cellulase (glycosyl hydrolase family 5); Region: Cellulase; pfam00150 296591013991 phosphoglycolate phosphatase; Provisional; Region: PRK13222 296591013992 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 296591013993 motif II; other site 296591013994 CHASE3 domain; Region: CHASE3; cl05000 296591013995 PAS domain S-box; Region: sensory_box; TIGR00229 296591013996 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 296591013997 putative active site [active] 296591013998 heme pocket [chemical binding]; other site 296591013999 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 296591014000 PAS domain; Region: PAS; smart00091 296591014001 putative active site [active] 296591014002 heme pocket [chemical binding]; other site 296591014003 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 296591014004 dimer interface [polypeptide binding]; other site 296591014005 phosphorylation site [posttranslational modification] 296591014006 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 296591014007 ATP binding site [chemical binding]; other site 296591014008 Mg2+ binding site [ion binding]; other site 296591014009 G-X-G motif; other site 296591014010 Response regulator receiver domain; Region: Response_reg; pfam00072 296591014011 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 296591014012 active site 296591014013 phosphorylation site [posttranslational modification] 296591014014 intermolecular recognition site; other site 296591014015 dimerization interface [polypeptide binding]; other site 296591014016 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 296591014017 Response regulator receiver domain; Region: Response_reg; pfam00072 296591014018 active site 296591014019 phosphorylation site [posttranslational modification] 296591014020 intermolecular recognition site; other site 296591014021 dimerization interface [polypeptide binding]; other site 296591014022 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 296591014023 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 296591014024 active site 296591014025 phosphorylation site [posttranslational modification] 296591014026 intermolecular recognition site; other site 296591014027 dimerization interface [polypeptide binding]; other site 296591014028 Adenylate cyclase, family 3 (some proteins contain HAMP domain) [Signal transduction mechanisms]; Region: CyaA; COG2114 296591014029 cyclase homology domain; Region: CHD; cd07302 296591014030 nucleotidyl binding site; other site 296591014031 metal binding site [ion binding]; metal-binding site 296591014032 dimer interface [polypeptide binding]; other site 296591014033 FOG: HPt domain [Signal transduction mechanisms]; Region: ArcB; COG2198 296591014034 putative binding surface; other site 296591014035 active site 296591014036 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 296591014037 ribulose-phosphate 3-epimerase; Region: rpe; TIGR01163 296591014038 substrate binding site [chemical binding]; other site 296591014039 hexamer interface [polypeptide binding]; other site 296591014040 metal binding site [ion binding]; metal-binding site 296591014041 CO2+/MG2+ efflux protein ApaG; Reviewed; Region: apaG; PRK05461 296591014042 Site-specific recombinase; Region: SpecificRecomb; pfam10136 296591014043 gamma-glutamyl:cysteine ligase; Provisional; Region: PRK13516 296591014044 carboxylate-amine ligase, YbdK family; Region: gshA_cyan_rel; TIGR02050 296591014045 thiamine monophosphate kinase; Provisional; Region: PRK05731 296591014046 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 296591014047 ATP binding site [chemical binding]; other site 296591014048 dimerization interface [polypeptide binding]; other site 296591014049 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4222 296591014050 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591014051 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591014052 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 296591014053 putative effector binding pocket; other site 296591014054 dimerization interface [polypeptide binding]; other site 296591014055 Phosphatidylglycerophosphatase A; a bacterial membrane-associated enzyme involved in lipid metabolism; Region: PgpA; cd06971 296591014056 tetramer interfaces [polypeptide binding]; other site 296591014057 binuclear metal-binding site [ion binding]; other site 296591014058 Uncharacterized protein (competence- and mitomycin-induced) [General function prediction only]; Region: CinA; COG1546 296591014059 SnoaL-like domain; Region: SnoaL_2; pfam12680 296591014060 Predicted hydrolases or acyltransferases (alpha/beta hydrolase superfamily) [General function prediction only]; Region: MhpC; COG0596 296591014061 OsmC-like protein; Region: OsmC; cl00767 296591014062 Uncharacterized protein family (UPF0149); Region: UPF0149; pfam03695 296591014063 PIN domain; Region: PIN_3; pfam13470 296591014064 THUMP domain associated with S-adenosylmethionine-dependent methyltransferases; Region: THUMP_AdoMetMT; cd11715 296591014065 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 296591014066 RNA polymerase factor sigma-54; Reviewed; Region: PRK05932 296591014067 Sigma-54 factor, Activator interacting domain (AID); Region: Sigma54_AID; pfam00309 296591014068 Sigma-54 factor, core binding domain; Region: Sigma54_CBD; pfam04963 296591014069 Sigma-54, DNA binding domain; Region: Sigma54_DBD; pfam04552 296591014070 ABC-type (unclassified) transport system, ATPase component [General function prediction only]; Region: YhbG; COG1137 296591014071 ATP-binding cassette component of YhbG transport system; Region: ABC_YhbG; cd03218 296591014072 Walker A/P-loop; other site 296591014073 ATP binding site [chemical binding]; other site 296591014074 Q-loop/lid; other site 296591014075 ABC transporter signature motif; other site 296591014076 Walker B; other site 296591014077 D-loop; other site 296591014078 H-loop/switch region; other site 296591014079 lipopolysaccharide transport periplasmic protein LptA; Region: outer_YhbN_LptA; TIGR03002 296591014080 OstA-like protein; Region: OstA; pfam03968 296591014081 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 296591014082 DSBA-like thioredoxin domain; Region: DSBA; pfam01323 296591014083 catalytic residues [active] 296591014084 hinge region; other site 296591014085 alpha helical domain; other site 296591014086 Sporulation related domain; Region: SPOR; pfam05036 296591014087 arginyl-tRNA synthetase; Reviewed; Region: argS; PRK01611 296591014088 Arginyl tRNA synthetase N terminal dom; Region: Arg_tRNA_synt_N; smart01016 296591014089 catalytic core domain of arginyl-tRNA synthetases; Region: ArgRS_core; cd00671 296591014090 active site 296591014091 HIGH motif; other site 296591014092 KMSK motif region; other site 296591014093 Anticodon-binding domain of arginyl tRNA synthetases; Region: Anticodon_Ia_Arg; cd07956 296591014094 tRNA binding surface [nucleotide binding]; other site 296591014095 anticodon binding site; other site 296591014096 chromosome replication initiation inhibitor protein; Provisional; Region: PRK13348 296591014097 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591014098 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 296591014099 dimerization interface [polypeptide binding]; other site 296591014100 LysE type translocator; Region: LysE; cl00565 296591014101 LysR family transcriptional regulator; Provisional; Region: PRK14997 296591014102 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591014103 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 296591014104 putative effector binding pocket; other site 296591014105 dimerization interface [polypeptide binding]; other site 296591014106 Predicted phosphatase/phosphohexomutase [General function prediction only]; Region: COG0637 296591014107 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 296591014108 motif II; other site 296591014109 Shikimate 5-dehydrogenase [Amino acid transport and metabolism]; Region: AroE; COG0169 296591014110 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 296591014111 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 296591014112 shikimate binding site; other site 296591014113 NAD(P) binding site [chemical binding]; other site 296591014114 Sugar phosphate isomerases/epimerases [Carbohydrate transport and metabolism]; Region: IolE; COG1082 296591014115 4-hydroxyphenylpyruvate dioxygenase; Region: 4HPPD; TIGR01263 296591014116 N-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HPPD) and hydroxymandelate Synthase (HmaS); Region: HPPD_N_like; cd08342 296591014117 dimer interface [polypeptide binding]; other site 296591014118 C-terminal domain of 4-hydroxyphenylpyruvate dioxygenase (HppD) and hydroxymandelate Synthase (HmaS); Region: HPPD_C_like; cd07250 296591014119 active site 296591014120 Fe binding site [ion binding]; other site 296591014121 Dehydroquinase class II; Region: DHquinase_II; pfam01220 296591014122 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 296591014123 trimer interface [polypeptide binding]; other site 296591014124 active site 296591014125 dimer interface [polypeptide binding]; other site 296591014126 Predicted dehydrogenases and related proteins [General function prediction only]; Region: MviM; COG0673 296591014127 Oxidoreductase family, NAD-binding Rossmann fold; Region: GFO_IDH_MocA; pfam01408 296591014128 Oxidoreductase family, C-terminal alpha/beta domain; Region: GFO_IDH_MocA_C; pfam02894 296591014129 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 296591014130 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 296591014131 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 296591014132 DctM-like transporters; Region: DctM; pfam06808 296591014133 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 296591014134 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 296591014135 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 296591014136 shikimate 5-dehydrogenase; Reviewed; Region: aroE; PRK00258 296591014137 Shikimate dehydrogenase substrate binding domain; Region: Shikimate_dh_N; pfam08501 296591014138 NAD(P) binding domain of Shikimate dehydrogenase; Region: NAD_bind_Shikimate_DH; cd01065 296591014139 shikimate binding site; other site 296591014140 NAD(P) binding site [chemical binding]; other site 296591014141 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 296591014142 CoA-transferase family III; Region: CoA_transf_3; pfam02515 296591014143 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 296591014144 active site 296591014145 catalytic site [active] 296591014146 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cl14632 296591014147 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 296591014148 active site 296591014149 metal binding site [ion binding]; metal-binding site 296591014150 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 296591014151 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 296591014152 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 296591014153 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591014154 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591014155 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 296591014156 substrate binding pocket [chemical binding]; other site 296591014157 dimerization interface [polypeptide binding]; other site 296591014158 This domain superfamily is found in a variety of structurally related metalloproteins, including the type I extradiol dioxygenases, glyoxalase I and a group of antibiotic resistance proteins; Region: Glo_EDI_BRP_like; cd06587 296591014159 active site 296591014160 SMP-30/Gluconolaconase/LRE-like region; Region: SGL; pfam08450 296591014161 Strictosidine synthase; Region: Str_synth; pfam03088 296591014162 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591014163 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 296591014164 active site 296591014165 catalytic residues [active] 296591014166 metal binding site [ion binding]; metal-binding site 296591014167 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 296591014168 CoA-transferase family III; Region: CoA_transf_3; pfam02515 296591014169 Transcriptional regulator [Transcription]; Region: IclR; COG1414 296591014170 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 296591014171 Bacterial transcriptional regulator; Region: IclR; pfam01614 296591014172 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 296591014173 REG-2-like, HAD superfamily (subfamily IA) hydrolase; Region: DREG-2; TIGR02252 296591014174 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 296591014175 motif II; other site 296591014176 malate synthase G; Provisional; Region: PRK02999 296591014177 active site 296591014178 Transcriptional activator of acetoin/glycerol metabolism [Secondary metabolites biosynthesis, transport, and catabolism / Transcription]; Region: AcoR; COG3284 296591014179 Bacterial transcriptional regulator; Region: IclR; pfam01614 296591014180 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 296591014181 Walker A motif; other site 296591014182 ATP binding site [chemical binding]; other site 296591014183 Walker B motif; other site 296591014184 arginine finger; other site 296591014185 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 296591014186 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 296591014187 NAD-dependent benzaldehyde dehydrogenase II-like; Region: ALDH_BenzADH; cd07152 296591014188 NAD(P) binding site [chemical binding]; other site 296591014189 catalytic residues [active] 296591014190 Putative MetA-pathway of phenol degradation; Region: Phenol_MetA_deg; pfam13557 296591014191 Choline dehydrogenase and related flavoproteins [Amino acid transport and metabolism]; Region: BetA; COG2303 296591014192 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 296591014193 Metal-dependent amidase/aminoacylase/carboxypeptidase [General function prediction only]; Region: AbgB; COG1473 296591014194 M20 Peptidase Aminoacylase 1 subfamily; Region: M20_Acy1_like1; cd05666 296591014195 metal binding site [ion binding]; metal-binding site 296591014196 putative dimer interface [polypeptide binding]; other site 296591014197 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591014198 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591014199 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591014200 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 296591014201 dimerization interface [polypeptide binding]; other site 296591014202 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591014203 Transcriptional regulators [Transcription]; Region: PurR; COG1609 296591014204 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 296591014205 DNA binding site [nucleotide binding] 296591014206 domain linker motif; other site 296591014207 Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators; Region: PBP1_GntR; cd01575 296591014208 putative dimerization interface [polypeptide binding]; other site 296591014209 putative ligand binding site [chemical binding]; other site 296591014210 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 296591014211 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 296591014212 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 296591014213 putative switch regulator; other site 296591014214 non-specific DNA interactions [nucleotide binding]; other site 296591014215 DNA binding site [nucleotide binding] 296591014216 sequence specific DNA binding site [nucleotide binding]; other site 296591014217 putative cAMP binding site [chemical binding]; other site 296591014218 Uncharacterized protein conserved in bacteria (DUF2248); Region: DUF2248; pfam10005 296591014219 4-oxalocrotonate tautomerase; Provisional; Region: PRK00745 296591014220 active site 1 [active] 296591014221 dimer interface [polypeptide binding]; other site 296591014222 hexamer interface [polypeptide binding]; other site 296591014223 active site 2 [active] 296591014224 helix_turn_helix isocitrate lyase regulation; Region: HTH_ICLR; smart00346 296591014225 Transcriptional regulator [Transcription]; Region: IclR; COG1414 296591014226 Bacterial transcriptional regulator; Region: IclR; pfam01614 296591014227 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 296591014228 FAD-dependent oxidoreductase; Provisional; Region: PRK08132 296591014229 ubiquinone biosynthesis hydroxylase family protein; Provisional; Region: PRK07608; cl17314 296591014230 Protein of unknown function (DUF2783); Region: DUF2783; pfam10932 296591014231 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591014232 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 296591014233 putative substrate translocation pore; other site 296591014234 Predicted glutamine amidotransferase [General function prediction only]; Region: COG0121 296591014235 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 296591014236 putative active site [active] 296591014237 putative dimer interface [polypeptide binding]; other site 296591014238 glutathione synthetase; Provisional; Region: PRK05246 296591014239 Prokaryotic glutathione synthetase, N-terminal domain; Region: GSH-S_N; pfam02951 296591014240 Prokaryotic glutathione synthetase, ATP-grasp domain; Region: GSH-S_ATP; pfam02955 296591014241 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Validated; Region: PRK05584 296591014242 5'-methylthioadenosine/S-adenosylhomocysteine nucleosidase; Region: MTA/SAH-Nsdase; TIGR01704 296591014243 Long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07059 296591014244 Prokaryotic long-chain fatty acid CoA synthetases similar to Escherichia coli FadD; Region: FC-FACS_FadD_like; cd05936 296591014245 acyl-activating enzyme (AAE) consensus motif; other site 296591014246 putative AMP binding site [chemical binding]; other site 296591014247 putative active site [active] 296591014248 putative CoA binding site [chemical binding]; other site 296591014249 NAD/NADP transhydrogenase beta subunit [Energy production and conversion]; Region: PntB; COG1282 296591014250 NAD(P) transhydrogenase beta subunit; Region: PNTB; pfam02233 296591014251 Domain of unknown function (DUF3814); Region: DUF3814; pfam12769 296591014252 Rubrum transdehydrogenase NAD-binding and catalytic domains; Region: Rubrum_tdh; cd05304 296591014253 NAD/NADP transhydrogenase alpha subunit [Energy production and conversion]; Region: PntA; COG3288 296591014254 ligand binding site [chemical binding]; other site 296591014255 homodimer interface [polypeptide binding]; other site 296591014256 NAD(P) binding site [chemical binding]; other site 296591014257 trimer interface B [polypeptide binding]; other site 296591014258 trimer interface A [polypeptide binding]; other site 296591014259 Methylmalonate semialdehyde dehydrogenase and ALDH family members 6A1 and 6B2; Region: ALDH_F6_MMSDH; cd07085 296591014260 methylmalonic acid semialdehyde dehydrogenase; Region: MMSDH; TIGR01722 296591014261 tetrameric interface [polypeptide binding]; other site 296591014262 NAD binding site [chemical binding]; other site 296591014263 catalytic residues [active] 296591014264 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591014265 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591014266 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 296591014267 putative effector binding pocket; other site 296591014268 dimerization interface [polypeptide binding]; other site 296591014269 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 296591014270 nudix motif; other site 296591014271 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG2828 296591014272 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591014273 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591014274 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591014275 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 296591014276 putative dimerization interface [polypeptide binding]; other site 296591014277 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591014278 Uncharacterized conserved protein [Function unknown]; Region: COG3777 296591014279 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 296591014280 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 296591014281 active site 2 [active] 296591014282 active site 1 [active] 296591014283 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 296591014284 CoA-transferase family III; Region: CoA_transf_3; pfam02515 296591014285 Citrate lyase beta subunit [Carbohydrate transport and metabolism]; Region: CitE; COG2301 296591014286 3-carboxy-cis,cis-muconate cycloisomerase; Provisional; Region: PRK09053 296591014287 prokaryotic 3-carboxy-cis,cis-muconate cycloisomerase (CMLE)_like; Region: pCLME; cd01597 296591014288 tetramer interface [polypeptide binding]; other site 296591014289 active site 296591014290 Outer membrane protein (porin) [Cell envelope biogenesis, outer membrane]; Region: OmpC; COG3203 296591014291 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 296591014292 trimer interface [polypeptide binding]; other site 296591014293 eyelet of channel; other site 296591014294 Predicted tRNA(5-methylaminomethyl-2-thiouridylate) methyltransferase, contains the PP-loop ATPase domain [Translation, ribosomal structure and biogenesis]; Region: TrmU; COG0482 296591014295 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 296591014296 Ligand Binding Site [chemical binding]; other site 296591014297 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591014298 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591014299 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 296591014300 putative effector binding pocket; other site 296591014301 dimerization interface [polypeptide binding]; other site 296591014302 glyoxylate carboligase; Provisional; Region: PRK11269 296591014303 Pyrimidine (PYR) binding domain of POX and related proteins; Region: TPP_PYR_POX_like; cd07035 296591014304 PYR/PP interface [polypeptide binding]; other site 296591014305 dimer interface [polypeptide binding]; other site 296591014306 TPP binding site [chemical binding]; other site 296591014307 Thiamine pyrophosphate enzyme, central domain; Region: TPP_enzyme_M; pfam00205 296591014308 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 296591014309 TPP-binding site [chemical binding]; other site 296591014310 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 296591014311 tartronate semialdehyde reductase; Provisional; Region: PRK15059 296591014312 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 296591014313 MltA-interacting protein MipA; Region: MipA; cl01504 296591014314 Single-stranded DNA-binding protein [DNA replication, recombination, and repair]; Region: Ssb; COG0629 296591014315 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 296591014316 dimer interface [polypeptide binding]; other site 296591014317 ssDNA binding site [nucleotide binding]; other site 296591014318 tetramer (dimer of dimers) interface [polypeptide binding]; other site 296591014319 Major Facilitator Superfamily; Region: MFS_1; pfam07690 296591014320 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 296591014321 putative substrate translocation pore; other site 296591014322 excinuclease ABC subunit A; Reviewed; Region: uvrA; PRK00349 296591014323 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 296591014324 ATP-binding cassette domain I of the excision repair protein UvrA; Region: ABC_UvrA_I; cd03270 296591014325 ATP-binding cassette domain II of the excision repair protein UvrA; Region: ABC_UvrA_II; cd03271 296591014326 DNA-binding transcriptional regulator DhaR; Provisional; Region: PRK11388 296591014327 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 296591014328 Walker A motif; other site 296591014329 ATP binding site [chemical binding]; other site 296591014330 Walker B motif; other site 296591014331 arginine finger; other site 296591014332 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 296591014333 Ralstonia eutrophus NAD+-dependent acetaldehyde dehydrogenase II-like; Region: ALDH_ACDHII-AcoD; cd07116 296591014334 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 296591014335 NAD(P) binding site [chemical binding]; other site 296591014336 catalytic residues [active] 296591014337 Predicted metal-dependent hydrolase of the TIM-barrel fold [General function prediction only]; Region: COG3618 296591014338 2-pyrone-4,6-dicarboxylic acid (PDC) hydrolase hydrolyzes PDC to yield 4-oxalomesaconic acid (OMA) or its tautomer, 4-carboxy-2-hydroxymuconic acid (CHM). This reaction is part of the protocatechuate (PCA) 4,5-cleavage pathway. PCA is one of the most...; Region: PDC_hydrolase; cd01311 296591014339 active site 296591014340 Putative D-isomer specific 2-hydroxyacid dehydrogenases; Region: 2-Hacid_dh_8; cd12167 296591014341 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 296591014342 putative ligand binding site [chemical binding]; other site 296591014343 putative NAD binding site [chemical binding]; other site 296591014344 catalytic site [active] 296591014345 Transcriptional regulators [Transcription]; Region: PurR; COG1609 296591014346 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 296591014347 DNA binding site [nucleotide binding] 296591014348 domain linker motif; other site 296591014349 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 296591014350 DctM-like transporters; Region: DctM; pfam06808 296591014351 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 296591014352 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 296591014353 Transposase; Region: DDE_Tnp_ISL3; pfam01610 296591014354 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 296591014355 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 296591014356 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 296591014357 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 296591014358 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 296591014359 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 296591014360 nucleophile elbow; other site 296591014361 transcriptional regulator; Provisional; Region: PRK10632 296591014362 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591014363 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 296591014364 putative effector binding pocket; other site 296591014365 dimerization interface [polypeptide binding]; other site 296591014366 biliverdin IX beta reductase (BVR-B, aka flavin reductase)-like proteins; atypical (a) SDRs; Region: BVR-B_like_SDR_a; cd05244 296591014367 NADH(P)-binding; Region: NAD_binding_10; pfam13460 296591014368 NAD binding site [chemical binding]; other site 296591014369 substrate binding site [chemical binding]; other site 296591014370 putative active site [active] 296591014371 K+ transporter [Inorganic ion transport and metabolism]; Region: Kup; COG3158 296591014372 potassium uptake protein; Region: kup; TIGR00794 296591014373 glutamate--cysteine ligase, T. ferrooxidans family; Region: gshA_ferroox; TIGR02049 296591014374 Glutamate-cysteine ligase; Region: GshA; pfam08886 296591014375 Gamma-glutamyl phosphate reductase (GPR), aldehyde dehydrogenase families 18 and 19; Region: ALDH_F18-19_ProA-GPR; cd07079 296591014376 gamma-glutamyl phosphate reductase; Region: proA; TIGR00407 296591014377 putative catalytic cysteine [active] 296591014378 Hemerythrin-like domain; Region: Hr-like; cd12108 296591014379 Fe binding site [ion binding]; other site 296591014380 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 296591014381 putative FMN binding site [chemical binding]; other site 296591014382 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 296591014383 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 296591014384 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; cd00081 296591014385 protein-splicing catalytic site; other site 296591014386 thioester formation/cholesterol transfer; other site 296591014387 Intein/homing endonuclease [DNA replication, recombination, and repair]; Region: COG1372 296591014388 Hint (Hedgehog/Intein) domain C-terminal region; Region: HintC; smart00305 296591014389 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 296591014390 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 296591014391 Dioxygenases related to 2-nitropropane dioxygenase [General function prediction only]; Region: COG2070 296591014392 FMN binding site [chemical binding]; other site 296591014393 substrate binding site [chemical binding]; other site 296591014394 putative catalytic residue [active] 296591014395 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_cladeB; cd00884 296591014396 active site clefts [active] 296591014397 zinc binding site [ion binding]; other site 296591014398 dimer interface [polypeptide binding]; other site 296591014399 Parvulin-like peptidyl-prolyl isomerase [Posttranslational modification, protein turnover, chaperones]; Region: SurA; COG0760 296591014400 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 296591014401 Nitrate reductase gamma subunit; Region: Nitrate_red_gam; pfam02665 296591014402 Nitrate reductase delta subunit; Region: Nitrate_red_del; cl00958 296591014403 Nitrate reductase beta subunit [Energy production and conversion]; Region: NarY; COG1140 296591014404 4Fe-4S binding domain; Region: Fer4; cl02805 296591014405 Nitrate reductase alpha subunit [Energy production and conversion]; Region: NarG; COG5013 296591014406 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_Nitrate-R-NarG-like; cd02750 296591014407 [4Fe-4S] binding site [ion binding]; other site 296591014408 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 296591014409 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 296591014410 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 296591014411 Respiratory nitrate reductase A (NarGHI), alpha chain (NarG) and related proteins. Under anaerobic conditions in the presence of nitrate, E. coli synthesizes the cytoplasmic membrane-bound quinol-nitrate oxidoreductase (NarGHI), which reduces nitrate to...; Region: MopB_CT_Nitrate-R-NarG-like; cd02776 296591014412 molybdopterin cofactor binding site; other site 296591014413 nitrite extrusion protein (nitrite facilitator); Region: 2A0108; TIGR00886 296591014414 Nitrate/nitrite transporter [Inorganic ion transport and metabolism]; Region: NarK; COG2223 296591014415 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 296591014416 putative substrate translocation pore; other site 296591014417 transcriptional regulator NarL; Provisional; Region: PRK10651 296591014418 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 296591014419 active site 296591014420 phosphorylation site [posttranslational modification] 296591014421 intermolecular recognition site; other site 296591014422 dimerization interface [polypeptide binding]; other site 296591014423 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 296591014424 DNA binding residues [nucleotide binding] 296591014425 dimerization interface [polypeptide binding]; other site 296591014426 Type IV pili methyl-accepting chemotaxis transducer N-term; Region: PilJ; pfam13675 296591014427 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 296591014428 dimerization interface [polypeptide binding]; other site 296591014429 GAF domain; Region: GAF; pfam01590 296591014430 Histidine kinase; Region: HisKA_3; pfam07730 296591014431 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 296591014432 ATP binding site [chemical binding]; other site 296591014433 Mg2+ binding site [ion binding]; other site 296591014434 G-X-G motif; other site 296591014435 DNA polymerase III subunit delta; Reviewed; Region: holA; PRK05574 296591014436 DNA polymerase III, delta subunit; Region: DNA_pol3_delta; pfam06144 296591014437 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 296591014438 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 296591014439 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 296591014440 putative active site [active] 296591014441 putative NTP binding site [chemical binding]; other site 296591014442 putative nucleic acid binding site [nucleotide binding]; other site 296591014443 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 296591014444 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 296591014445 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 296591014446 active site 296591014447 ornithine cyclodeaminase; Validated; Region: PRK07589 296591014448 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 296591014449 Arginase family; Region: Arginase; cd09989 296591014450 agmatinase; Region: agmatinase; TIGR01230 296591014451 active site 296591014452 Mn binding site [ion binding]; other site 296591014453 oligomer interface [polypeptide binding]; other site 296591014454 Lipopolysaccharide-assembly; Region: LptE; cl01125 296591014455 leucyl-tRNA synthetase; Validated; Region: leuS; PRK00390 296591014456 catalytic core domain of leucyl-tRNA synthetases; Region: LeuRS_core; cd00812 296591014457 HIGH motif; other site 296591014458 Leucyl-tRNA synthetase, Domain 2; Region: tRNA-synt_1_2; pfam13603 296591014459 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 296591014460 nucleotidyl transferase superfamily; Region: nt_trans; cl00015 296591014461 active site 296591014462 KMSKS motif; other site 296591014463 Anticodon-binding domain of bacterial and eukaryotic mitochondrial leucyl tRNA synthetases; Region: Anticodon_Ia_Leu_BEm; cd07958 296591014464 tRNA binding surface [nucleotide binding]; other site 296591014465 Biopolymer transport protein [Intracellular trafficking and secretion]; Region: ExbD; COG0848 296591014466 TolR protein; Region: tolR; TIGR02801 296591014467 Biopolymer transport proteins [Intracellular trafficking and secretion]; Region: TolQ; COG0811 296591014468 dihydrodipicolinate reductase; Provisional; Region: PRK00048 296591014469 Dihydrodipicolinate reductase, N-terminus; Region: DapB_N; pfam01113 296591014470 Dihydrodipicolinate reductase, C-terminus; Region: DapB_C; pfam05173 296591014471 Outer membrane lipoprotein OmlA (small protein A) [Cell envelope biogenesis, outer membrane]; Region: OlmA; COG2913 296591014472 SmpA / OmlA family; Region: SmpA_OmlA; pfam04355 296591014473 ferric uptake regulator; Provisional; Region: fur; PRK09462 296591014474 Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators; Region: Fur_like; cd07153 296591014475 metal binding site 2 [ion binding]; metal-binding site 296591014476 putative DNA binding helix; other site 296591014477 metal binding site 1 [ion binding]; metal-binding site 296591014478 dimer interface [polypeptide binding]; other site 296591014479 structural Zn2+ binding site [ion binding]; other site 296591014480 HPr kinase/phosphorylase; Provisional; Region: PRK05428 296591014481 HPr Serine kinase N terminus; Region: Hpr_kinase_N; pfam02603 296591014482 HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent...; Region: HprK_C; cd01918 296591014483 Hpr binding site; other site 296591014484 active site 296591014485 homohexamer subunit interaction site [polypeptide binding]; other site 296591014486 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 296591014487 active site 296591014488 phosphorylation site [posttranslational modification] 296591014489 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 296591014490 30S subunit binding site; other site 296591014491 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 296591014492 Hypothetical patatin similar to Z1214 protein of Escherichia coli; Region: Pat_hypo_Ecoli_Z1214_like; cd07209 296591014493 active site 296591014494 nucleophile elbow; other site 296591014495 Mg2+ and Co2+ transporters [Inorganic ion transport and metabolism]; Region: CorA; COG0598 296591014496 Escherichia coli Mg2+ transporter CorA_like subgroup; Region: EcCorA-like_1; cd12835 296591014497 Cl binding site [ion binding]; other site 296591014498 oligomer interface [polypeptide binding]; other site 296591014499 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 296591014500 active site 296591014501 dimer interface [polypeptide binding]; other site 296591014502 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 296591014503 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 296591014504 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 296591014505 putative active site [active] 296591014506 putative NTP binding site [chemical binding]; other site 296591014507 putative nucleic acid binding site [nucleotide binding]; other site 296591014508 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 296591014509 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 296591014510 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 296591014511 active site 296591014512 Permeases of the drug/metabolite transporter (DMT) superfamily [Carbohydrate transport and metabolism / Amino acid transport and metabolism / General function prediction only]; Region: RhaT; COG0697 296591014513 EamA-like transporter family; Region: EamA; pfam00892 296591014514 EamA-like transporter family; Region: EamA; pfam00892 296591014515 Family 4 Uracil-DNA glycosylase (UDG), found exclusively in thermophilic organisms; Region: UDG_F4_TTUDGA_like; cd10030 296591014516 active site 296591014517 Fe-S cluster binding site [ion binding]; other site 296591014518 ribosomal-protein-alanine acetyltransferase; Region: rimI; TIGR01575 296591014519 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 296591014520 Coenzyme A binding pocket [chemical binding]; other site 296591014521 tRNA threonylcarbamoyl adenosine modification protein YeaZ; Region: T6A_YeaZ; TIGR03725 296591014522 Glycoprotease family; Region: Peptidase_M22; pfam00814 296591014523 D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein 4) [Cell envelope biogenesis, outer membrane]; Region: DacB; COG2027 296591014524 Uncharacterized conserved protein [Function unknown]; Region: COG4095 296591014525 CutA1 divalent ion tolerance protein; Region: CutA1; cl00584 296591014526 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]; Region: SUA5; COG0009 296591014527 Putative GTP-binding controlling metal-binding; Region: SUA5; pfam03481 296591014528 phosphoribosylaminoimidazole carboxylase ATPase subunit; Reviewed; Region: PRK06019 296591014529 ATP-grasp domain; Region: ATP-grasp; pfam02222 296591014530 AIR carboxylase; Region: AIRC; pfam00731 296591014531 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]; Region: COG3118 296591014532 ybbN protein family; ybbN is a hypothetical protein containing a redox-inactive TRX-like domain. Its gene has been sequenced from several gammaproteobacteria and actinobacteria; Region: ybbN; cd02956 296591014533 non-metazoan 5-aminoimidazole-4-(N-succinylcarboxamide) ribonucleotide (SAICAR) synthase; Region: SAICAR_synt_Sc; cd01414 296591014534 ATP binding site [chemical binding]; other site 296591014535 active site 296591014536 substrate binding site [chemical binding]; other site 296591014537 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 296591014538 fructose-bisphosphate aldolase; Provisional; Region: PRK09197 296591014539 intersubunit interface [polypeptide binding]; other site 296591014540 active site 296591014541 zinc binding site [ion binding]; other site 296591014542 Na+ binding site [ion binding]; other site 296591014543 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 296591014544 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 296591014545 dimer interface [polypeptide binding]; other site 296591014546 phosphorylation site [posttranslational modification] 296591014547 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 296591014548 ATP binding site [chemical binding]; other site 296591014549 Mg2+ binding site [ion binding]; other site 296591014550 G-X-G motif; other site 296591014551 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 296591014552 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 296591014553 active site 296591014554 phosphorylation site [posttranslational modification] 296591014555 intermolecular recognition site; other site 296591014556 dimerization interface [polypeptide binding]; other site 296591014557 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 296591014558 DNA binding site [nucleotide binding] 296591014559 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 296591014560 active site 296591014561 pyruvate kinase; Provisional; Region: PRK05826 296591014562 Pyruvate kinase (PK): Large allosteric enzyme that regulates glycolysis through binding of the substrate, phosphoenolpyruvate, and one or more allosteric effectors. Like other allosteric enzymes, PK has a high substrate affinity R state and a low...; Region: Pyruvate_Kinase; cl17342 296591014563 domain interfaces; other site 296591014564 active site 296591014565 phosphoglycerate kinase; Provisional; Region: pgk; PRK00073 296591014566 Phosphoglycerate kinase; Region: PGK; pfam00162 296591014567 substrate binding site [chemical binding]; other site 296591014568 hinge regions; other site 296591014569 ADP binding site [chemical binding]; other site 296591014570 catalytic site [active] 296591014571 Branched-chain amino acid transport protein (AzlD); Region: AzlD; pfam05437 296591014572 AzlC protein; Region: AzlC; pfam03591 296591014573 methionyl-tRNA formyltransferase; Reviewed; Region: fmt; PRK00005 296591014574 Methionyl-tRNA formyltransferase, N-terminal hydrolase domain; Region: FMT_core_Met-tRNA-FMT_N; cd08646 296591014575 putative active site [active] 296591014576 substrate binding site [chemical binding]; other site 296591014577 putative cosubstrate binding site; other site 296591014578 catalytic site [active] 296591014579 C-terminal domain of Formyltransferase and other enzymes; Region: Met_tRNA_FMT_C; cd08704 296591014580 substrate binding site [chemical binding]; other site 296591014581 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 296591014582 active site 296591014583 catalytic residues [active] 296591014584 metal binding site [ion binding]; metal-binding site 296591014585 Lysine Motif is a small domain involved in binding peptidoglycan; Region: LysM; cd00118 296591014586 Predicted Rossmann fold nucleotide-binding protein involved in DNA uptake [DNA replication, recombination, and repair / Intracellular trafficking and secretion]; Region: Smf; COG0758 296591014587 DNA protecting protein DprA; Region: dprA; TIGR00732 296591014588 Protein of unknown function (DUF494); Region: DUF494; pfam04361 296591014589 Protein of unknown function (DUF1631); Region: DUF1631; pfam07793 296591014590 preprotein translocase subunit SecF; Reviewed; Region: secF; PRK13022 296591014591 Protein export membrane protein; Region: SecD_SecF; pfam02355 296591014592 SecD export protein N-terminal TM region; Region: SecD-TM1; pfam13721 296591014593 preprotein translocase subunit SecD; Reviewed; Region: secD; PRK05812 296591014594 SecD/SecF GG Motif; Region: Sec_GG; pfam07549 296591014595 protein-export membrane protein, SecD/SecF family; Region: 2A0604s01; TIGR00916 296591014596 preprotein translocase subunit YajC; Validated; Region: yajC; PRK05585 296591014597 indolepyruvate ferredoxin oxidoreductase; Validated; Region: PRK09193 296591014598 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 296591014599 dimer interface [polypeptide binding]; other site 296591014600 PYR/PP interface [polypeptide binding]; other site 296591014601 TPP binding site [chemical binding]; other site 296591014602 substrate binding site [chemical binding]; other site 296591014603 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 296591014604 TPP-binding site; other site 296591014605 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 296591014606 Transcriptional regulators [Transcription]; Region: Lrp; COG1522 296591014607 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 296591014608 putative DNA binding site [nucleotide binding]; other site 296591014609 putative Zn2+ binding site [ion binding]; other site 296591014610 AsnC family; Region: AsnC_trans_reg; pfam01037 296591014611 MltA specific insert domain; Region: MltA; smart00925 296591014612 3D domain; Region: 3D; pfam06725 296591014613 Response regulator [Signal transduction mechanisms]; Region: TtrR; COG4566 296591014614 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 296591014615 active site 296591014616 phosphorylation site [posttranslational modification] 296591014617 intermolecular recognition site; other site 296591014618 dimerization interface [polypeptide binding]; other site 296591014619 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 296591014620 DNA binding residues [nucleotide binding] 296591014621 dimerization interface [polypeptide binding]; other site 296591014622 FOG: PAS/PAC domain [Signal transduction mechanisms]; Region: AtoS; COG2202 296591014623 Signal transduction histidine kinase, nitrogen specific [Signal transduction mechanisms]; Region: NtrB; COG3852 296591014624 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 296591014625 putative active site [active] 296591014626 heme pocket [chemical binding]; other site 296591014627 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 296591014628 dimer interface [polypeptide binding]; other site 296591014629 phosphorylation site [posttranslational modification] 296591014630 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 296591014631 ATP binding site [chemical binding]; other site 296591014632 Mg2+ binding site [ion binding]; other site 296591014633 G-X-G motif; other site 296591014634 nitrilase; Region: PLN02798 296591014635 Nit1, Nit 2, and related proteins, and the Nit1-like domain of NitFhit (class 10 nitrilases); Region: nit; cd07572 296591014636 putative active site [active] 296591014637 catalytic triad [active] 296591014638 dimer interface [polypeptide binding]; other site 296591014639 TIGR02099 family protein; Region: TIGR02099 296591014640 AsmA-like C-terminal region; Region: AsmA_2; pfam13502 296591014641 bifunctional glutamine-synthetase adenylyltransferase/deadenyltransferase; Reviewed; Region: PRK11072 296591014642 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 296591014643 metal binding triad; other site 296591014644 GlnD PII-uridylyltransferase; Region: GlnD_UR_UTase; pfam08335 296591014645 Nucleotidyltransferase (NT) domain of Escherichia coli adenylyltransferase (GlnE), Escherichia coli uridylyl transferase (GlnD), and similar proteins; Region: NT_GlnE_GlnD_like; cd05401 296591014646 metal binding triad; other site 296591014647 rfaE bifunctional protein, domain II; Region: rfaE_dom_II; TIGR02199 296591014648 Cytidylyltransferase; Region: CTP_transf_2; pfam01467 296591014649 active site 296591014650 nucleotide binding site [chemical binding]; other site 296591014651 HIGH motif; other site 296591014652 KMSKS motif; other site 296591014653 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 296591014654 catalytic residues [active] 296591014655 dimer interface [polypeptide binding]; other site 296591014656 putative glutathione S-transferase; Provisional; Region: PRK10357 296591014657 GST_N family, unknown subfamily 3; 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_3; cd03049 296591014658 putative C-terminal domain interface [polypeptide binding]; other site 296591014659 putative GSH binding site (G-site) [chemical binding]; other site 296591014660 putative dimer interface [polypeptide binding]; other site 296591014661 C-terminal, alpha helical domain of an unknown subfamily 6 of Glutathione S-transferases; Region: GST_C_6; cd03205 296591014662 dimer interface [polypeptide binding]; other site 296591014663 N-terminal domain interface [polypeptide binding]; other site 296591014664 putative substrate binding pocket (H-site) [chemical binding]; other site 296591014665 adenylosuccinate lyase; Provisional; Region: PRK09285 296591014666 PurB_like adenylosuccinases (adenylsuccinate lyase, ASL); Region: PurB; cd01598 296591014667 tetramer interface [polypeptide binding]; other site 296591014668 active site 296591014669 Domain of unknown function (DUF2007); Region: DUF2007; pfam09413 296591014670 Protein of unknown function (DUF3717); Region: DUF3717; pfam12512 296591014671 Protein of unknown function (DUF1289); Region: DUF1289; pfam06945 296591014672 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 296591014673 Membrane protein of unknown function; Region: DUF360; pfam04020 296591014674 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]; Region: COG4783 296591014675 Peptidase family M48; Region: Peptidase_M48; cl12018 296591014676 MoaC family, prokaryotic and eukaryotic. 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...; Region: MoaC_PE; cd01420 296591014677 trimer interface [polypeptide binding]; other site 296591014678 dimer interface [polypeptide binding]; other site 296591014679 putative active site [active] 296591014680 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 296591014681 O-Antigen ligase; Region: Wzy_C; pfam04932 296591014682 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 296591014683 Lipid A core - O-antigen ligase and related enzymes [Cell envelope biogenesis, outer membrane]; Region: RfaL; COG3307 296591014684 O-Antigen ligase; Region: Wzy_C; pfam04932 296591014685 Domain of unknown function (DUF3366); Region: DUF3366; pfam11846 296591014686 Tfp pilus assembly protein, major pilin PilA [Cell motility and secretion / Intracellular trafficking and secretion]; Region: PilA; COG4969 296591014687 Pilin (bacterial filament); Region: Pilin; pfam00114 296591014688 Beta-lactamase superfamily domain; Region: Lactamase_B_2; pfam12706 296591014689 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 296591014690 FOG: FHA domain [Signal transduction mechanisms]; Region: COG1716 296591014691 phosphopeptide binding site; other site 296591014692 Serine/threonine phosphatases, family 2C, catalytic domain; The protein architecture and deduced catalytic mechanism of PP2C phosphatases are similar to the PP1, PP2A, PP2B family of protein Ser/Thr phosphatases, with which PP2C shares no sequence...; Region: PP2Cc; cd00143 296591014693 active site 296591014694 integral membrane protein, YjbE family; Region: R_switched_YjbE; TIGR03717 296591014695 succinyl-CoA synthetase subunit alpha; Validated; Region: PRK05678 296591014696 CoA binding domain; Region: CoA_binding; smart00881 296591014697 CoA-ligase; Region: Ligase_CoA; pfam00549 296591014698 succinyl-CoA synthetase subunit beta; Provisional; Region: sucC; PRK00696 296591014699 ATP-grasp domain; Region: ATP-grasp_2; pfam08442 296591014700 CoA-ligase; Region: Ligase_CoA; pfam00549 296591014701 N-acetyl-gamma-glutamyl-phosphate reductase; Provisional; Region: PRK11863 296591014702 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 296591014703 recombination regulator RecX; Reviewed; Region: recX; PRK00117 296591014704 recombinase A; Provisional; Region: recA; PRK09354 296591014705 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 296591014706 hexamer interface [polypeptide binding]; other site 296591014707 Walker A motif; other site 296591014708 ATP binding site [chemical binding]; other site 296591014709 Walker B motif; other site 296591014710 Transcriptional regulators [Transcription]; Region: MarR; COG1846 296591014711 Winged helix DNA-binding domain; Region: HTH_27; pfam13463 296591014712 Response regulators consisting of a CheY-like receiver domain and a winged-helix DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: OmpR; COG0745 296591014713 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 296591014714 active site 296591014715 phosphorylation site [posttranslational modification] 296591014716 intermolecular recognition site; other site 296591014717 dimerization interface [polypeptide binding]; other site 296591014718 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 296591014719 DNA binding site [nucleotide binding] 296591014720 Two-component sensor kinase N-terminal; Region: 2CSK_N; pfam08521 296591014721 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 296591014722 dimer interface [polypeptide binding]; other site 296591014723 phosphorylation site [posttranslational modification] 296591014724 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 296591014725 ATP binding site [chemical binding]; other site 296591014726 Mg2+ binding site [ion binding]; other site 296591014727 G-X-G motif; other site 296591014728 phosphonate utilization associated putative membrane protein; Region: phn_DUF6; TIGR03340 296591014729 EamA-like transporter family; Region: EamA; pfam00892 296591014730 phosphonate degradation operons associated HDIG domain protein; Region: Phn-HD; TIGR03276 296591014731 putative phosphonoacetaldehyde dehydrogenase; Region: PhnAcAld_DH; TIGR03250 296591014732 Streptomyces putative phosphonoformaldehyde dehydrogenase PhpJ-like; Region: ALDH_PhpJ; cd07146 296591014733 NAD(P) binding site [chemical binding]; other site 296591014734 catalytic residues [active] 296591014735 phosphonoacetate hydrolase; Region: hydr_PhnA; TIGR02335 296591014736 Type I phosphodiesterase / nucleotide pyrophosphatase; Region: Phosphodiest; pfam01663 296591014737 phosphonate utilization associated transcriptional regulator; Region: phnR_burk; TIGR03338 296591014738 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591014739 DNA-binding site [nucleotide binding]; DNA binding site 296591014740 FCD domain; Region: FCD; pfam07729 296591014741 Bacterial extracellular solute-binding protein; Region: SBP_bac_1; cl17199 296591014742 Bacterial extracellular solute-binding protein; Region: SBP_bac_8; pfam13416 296591014743 putative 2-aminoethylphosphonate ABC transporter, ATP-binding protein; Region: PhnT2; TIGR03265 296591014744 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 296591014745 Walker A/P-loop; other site 296591014746 ATP binding site [chemical binding]; other site 296591014747 Q-loop/lid; other site 296591014748 ABC transporter signature motif; other site 296591014749 Walker B; other site 296591014750 D-loop; other site 296591014751 H-loop/switch region; other site 296591014752 TOBE domain; Region: TOBE_2; pfam08402 296591014753 putative 2-aminoethylphosphonate ABC transporter, permease protein; Region: PhnU2; TIGR03262 296591014754 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 296591014755 dimer interface [polypeptide binding]; other site 296591014756 conserved gate region; other site 296591014757 putative PBP binding loops; other site 296591014758 ABC-ATPase subunit interface; other site 296591014759 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 296591014760 dimer interface [polypeptide binding]; other site 296591014761 conserved gate region; other site 296591014762 putative PBP binding loops; other site 296591014763 ABC-ATPase subunit interface; other site 296591014764 2-aminoethylphosphonate--pyruvate transaminase; Provisional; Region: PRK13479 296591014765 pyridoxal 5'-phosphate binding pocket [chemical binding]; other site 296591014766 catalytic residue [active] 296591014767 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 296591014768 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 296591014769 Acetyltransferase (GNAT) domain; Region: Acetyltransf_4; pfam13420 296591014770 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 296591014771 Coenzyme A binding pocket [chemical binding]; other site 296591014772 Alcohol dehydrogenase, class IV [Energy production and conversion]; Region: EutG; COG1454 296591014773 Iron-containing alcohol dehydrogenases-like, involved in the linear alkylbenzenesulfonate (LAS) degradation pathway; Region: Fe-ADH7; cd08192 296591014774 putative active site [active] 296591014775 metal binding site [ion binding]; metal-binding site 296591014776 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_2; cd01745 296591014777 Peptidase C26; Region: Peptidase_C26; pfam07722 296591014778 catalytic triad [active] 296591014779 Aldehyde dehydrogenase family; Region: Aldedh; pfam00171 296591014780 Uncharacterized aldehyde dehydrogenase of Synechococcus sp. PCC 7335 (EDX86601); Region: ALDH_EDX86601; cd07102 296591014781 NAD(P) binding site [chemical binding]; other site 296591014782 catalytic residues [active] 296591014783 Phosphoserine phosphatase [Amino acid transport and metabolism]; Region: SerB; COG0560 296591014784 haloacid dehalogenase-like hydrolase; Region: HAD; cl17202 296591014785 Winged helix-turn helix; Region: HTH_29; pfam13551 296591014786 putative transposase OrfB; Reviewed; Region: PHA02517 296591014787 HTH-like domain; Region: HTH_21; pfam13276 296591014788 Integrase core domain; Region: rve; pfam00665 296591014789 Integrase core domain; Region: rve_3; pfam13683 296591014790 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 296591014791 membrane-bound complex binding site; other site 296591014792 enoyl-CoA hydratase; Provisional; Region: PRK09245 296591014793 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 296591014794 substrate binding site [chemical binding]; other site 296591014795 oxyanion hole (OAH) forming residues; other site 296591014796 trimer interface [polypeptide binding]; other site 296591014797 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 296591014798 CoA-transferase family III; Region: CoA_transf_3; pfam02515 296591014799 DNA-binding transcriptional activator GcvA; Provisional; Region: PRK11139 296591014800 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591014801 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 296591014802 dimerization interface [polypeptide binding]; other site 296591014803 substrate binding pocket [chemical binding]; other site 296591014804 DNA topoisomerase III; Provisional; Region: PRK14724 296591014805 TOPRIM_TopoIA_TopoIII: The topoisomerase-primase (TORPIM) domain found in members of the type IA family of DNA topoisomerases (Topo IA) similar to topoisomerase III. Type IA DNA topoisomerases remove (relax) negative supercoils in the DNA by: cleaving...; Region: TOPRIM_TopoIA_TopoIII; cd03362 296591014806 active site 296591014807 putative interdomain interaction site [polypeptide binding]; other site 296591014808 putative metal-binding site [ion binding]; other site 296591014809 putative nucleotide binding site [chemical binding]; other site 296591014810 Bacterial DNA topoisomeraes I ATP-binding domain; Region: TOP1Bc; smart00436 296591014811 domain I; other site 296591014812 phosphate binding site [ion binding]; other site 296591014813 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 296591014814 domain II; other site 296591014815 domain III; other site 296591014816 nucleotide binding site [chemical binding]; other site 296591014817 DNA binding groove [nucleotide binding] 296591014818 catalytic site [active] 296591014819 domain IV; other site 296591014820 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 296591014821 C-terminal repeat of topoisomerase; Region: Toprim_Crpt; pfam13342 296591014822 SWI complex, BAF60b domains; Region: SWIB; smart00151 296591014823 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 296591014824 Thioredoxin-like; Region: Thioredoxin_8; pfam13905 296591014825 catalytic residues [active] 296591014826 SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain; Region: SET; smart00317 296591014827 Proteins containing SET domain [General function prediction only]; Region: COG2940 296591014828 biotin--protein ligase; Provisional; Region: PRK06955 296591014829 Biotin/lipoate A/B protein ligase family; Region: BPL_LplA_LipB; pfam03099 296591014830 Biotin protein ligase C terminal domain; Region: BPL_C; pfam02237 296591014831 putative hydrolase; Provisional; Region: PRK11460 296591014832 Predicted esterase [General function prediction only]; Region: COG0400 296591014833 FKBP-type peptidyl-prolyl cis-trans isomerase; Provisional; Region: PRK15095 296591014834 Uncharacterized conserved protein (DUF2249); Region: DUF2249; cl17719 296591014835 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 296591014836 Transposase DDE domain; Region: DDE_Tnp_1_2; pfam13586 296591014837 Uncharacterized conserved protein (DUF2249); Region: DUF2249; pfam10006 296591014838 Transcriptional regulator; Region: Rrf2; cl17282 296591014839 Rrf2 family protein; Region: rrf2_super; TIGR00738 296591014840 Predicted metal-sulfur cluster biosynthetic enzyme [General function prediction only]; Region: PaaD; COG2151 296591014841 NnrS protein; Region: NnrS; pfam05940 296591014842 Invasion gene expression up-regulator, SirB; Region: SirB; pfam04247 296591014843 Predicted membrane protein, hemolysin III homolog [General function prediction only]; Region: COG1272 296591014844 channel protein, hemolysin III family; Region: hlyIII; TIGR01065 296591014845 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 296591014846 putative deacylase active site [active] 296591014847 3HB-oligomer hydrolase (3HBOH); Region: 3HBOH; pfam10605 296591014848 leucine transcriptional activator; Reviewed; Region: leuO; PRK09508 296591014849 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591014850 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 296591014851 substrate binding pocket [chemical binding]; other site 296591014852 dimerization interface [polypeptide binding]; other site 296591014853 Indolepyruvate ferredoxin oxidoreductase, alpha and beta subunits [Energy production and conversion]; Region: COG4231 296591014854 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 296591014855 dimer interface [polypeptide binding]; other site 296591014856 PYR/PP interface [polypeptide binding]; other site 296591014857 TPP binding site [chemical binding]; other site 296591014858 substrate binding site [chemical binding]; other site 296591014859 Thiamine pyrophosphate (TPP) family, IOR-alpha subfamily, TPP-binding module; composed of proteins similar to indolepyruvate ferredoxin oxidoreductase (IOR) alpha subunit. IOR catalyzes the oxidative decarboxylation of arylpyruvates, such as...; Region: TPP_IOR_alpha; cd02008 296591014860 TPP-binding site; other site 296591014861 putative indolepyruvate oxidoreductase subunit B; Reviewed; Region: PRK08312 296591014862 Pyruvate:ferredoxin oxidoreductase and related 2-oxoacid:ferredoxin oxidoreductases, gamma subunit [Energy production and conversion]; Region: PorG; COG1014 296591014863 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; cl15441 296591014864 Tripartite ATP-independent periplasmic transporters, DctQ component; Region: DctQ; pfam04290 296591014865 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; cl17274 296591014866 DctM-like transporters; Region: DctM; pfam06808 296591014867 YbaK-like. The YbaK family of deacylase domains includes the INS amino acid-editing domain of the bacterial class II prolyl tRNA synthetase (ProRS), and it's trans-acting homologs, YbaK, ProX, and PrdX. The primary function of INS is to hydrolyze...; Region: YbaK_like; cd04332 296591014868 putative deacylase active site [active] 296591014869 Fructose-1,6-bisphosphate aldolase; Region: FBP_aldolase_I_a; cd00948 296591014870 active site 296591014871 intersubunit interface [polypeptide binding]; other site 296591014872 catalytic residue [active] 296591014873 Response regulator receiver domain; Region: Response_reg; pfam00072 296591014874 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 296591014875 active site 296591014876 phosphorylation site [posttranslational modification] 296591014877 intermolecular recognition site; other site 296591014878 dimerization interface [polypeptide binding]; other site 296591014879 MTH538 TIR-like domain (DUF1863); Region: DUF1863; pfam08937 296591014880 TIR domain; Region: TIR_2; pfam13676 296591014881 MTH538 TIR-like domain (DUF1863); Region: DUF1863; pfam08937 296591014882 Nucleoside Triphosphate Pyrophosphohydrolase (EC 3.6.1.8) MazG-like domain found in a group of uncharacterized proteins from bacteria and archaea; Region: NTP-PPase_u4; cd11541 296591014883 putative metal binding site [ion binding]; other site 296591014884 Uracil-DNA glycosylases (UDG) and related enzymes; Region: UDG_like; cl00483 296591014885 ligand binding site [chemical binding]; other site 296591014886 active site 296591014887 Uncharacterized conserved protein [Function unknown]; Region: COG3148 296591014888 Asp/Glu/Hydantoin racemase; Region: Asp_Glu_race; cl00518 296591014889 aspartate racemase; Region: asp_race; TIGR00035 296591014890 MltA-interacting protein MipA; Region: MipA; cl01504 296591014891 Glycine/D-amino acid oxidases (deaminating) [Amino acid transport and metabolism]; Region: DadA; COG0665 296591014892 Fic family protein [Function unknown]; Region: COG3177 296591014893 Domain of unknown function (DUF4172); Region: DUF4172; pfam13776 296591014894 Fic/DOC family; Region: Fic; pfam02661 296591014895 LysR family transcriptional regulator; Provisional; Region: PRK14997 296591014896 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591014897 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 296591014898 putative effector binding pocket; other site 296591014899 putative dimerization interface [polypeptide binding]; other site 296591014900 Pirin-related protein [General function prediction only]; Region: COG1741 296591014901 Pirin; Region: Pirin; pfam02678 296591014902 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 296591014903 Isochorismatase family; Region: Isochorismatase; pfam00857 296591014904 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 296591014905 catalytic triad [active] 296591014906 dimer interface [polypeptide binding]; other site 296591014907 conserved cis-peptide bond; other site 296591014908 PIN domain; Region: PIN_3; pfam13470 296591014909 Helix-turn-helix domain; Region: HTH_17; cl17695 296591014910 Short-chain alcohol dehydrogenase of unknown specificity [General function prediction only]; Region: COG4221 296591014911 17beta hydroxysteroid dehydrogenase-like, classical (c) SDRs; Region: 17beta-HSD-like_SDR_c; cd05374 296591014912 NADP binding site [chemical binding]; other site 296591014913 active site 296591014914 steroid binding site; other site 296591014915 short chain dehydrogenase; Provisional; Region: PRK12937 296591014916 tetrahydroxynaphthalene/trihydroxynaphthalene reductase-like, classical (c) SDRs; Region: THN_reductase-like_SDR_c; cd05362 296591014917 NADP binding site [chemical binding]; other site 296591014918 homodimer interface [polypeptide binding]; other site 296591014919 active site 296591014920 substrate binding site [chemical binding]; other site 296591014921 transcriptional regulator; Provisional; Region: PRK10632 296591014922 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591014923 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 296591014924 putative effector binding pocket; other site 296591014925 putative dimerization interface [polypeptide binding]; other site 296591014926 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 296591014927 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 296591014928 WHG domain; Region: WHG; pfam13305 296591014929 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 296591014930 dimer interface [polypeptide binding]; other site 296591014931 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 296591014932 dimer interface [polypeptide binding]; other site 296591014933 Glyoxalase/Bleomycin resistance protein/Dioxygenase superfamily; Region: Glyoxalase; pfam00903 296591014934 Glutathione S-transferase [Posttranslational modification, protein turnover, chaperones]; Region: Gst; COG0625 296591014935 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 296591014936 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 296591014937 N-terminal domain interface [polypeptide binding]; other site 296591014938 dimer interface [polypeptide binding]; other site 296591014939 substrate binding pocket (H-site) [chemical binding]; other site 296591014940 Protein of unknown function (DUF1579); Region: DUF1579; pfam07617 296591014941 Pirin-related protein [General function prediction only]; Region: COG1741 296591014942 Pirin; Region: Pirin; pfam02678 296591014943 Pirin C-terminal cupin domain; Region: Pirin_C; pfam05726 296591014944 Electron transfer DM13; Region: DM13; pfam10517 296591014945 ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]; Region: FepC; COG1120 296591014946 ATP-binding component of iron-siderophores, vitamin B12 and hemin transporters and related proteins; Region: ABC_Iron-Siderophores_B12_Hemin; cd03214 296591014947 Walker A/P-loop; other site 296591014948 ATP binding site [chemical binding]; other site 296591014949 Q-loop/lid; other site 296591014950 ABC transporter signature motif; other site 296591014951 Walker B; other site 296591014952 D-loop; other site 296591014953 H-loop/switch region; other site 296591014954 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 296591014955 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 296591014956 ABC-ATPase subunit interface; other site 296591014957 dimer interface [polypeptide binding]; other site 296591014958 putative PBP binding regions; other site 296591014959 iron-hydroxamate transporter permease subunit; Provisional; Region: PRK10577 296591014960 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 296591014961 ABC-ATPase subunit interface; other site 296591014962 dimer interface [polypeptide binding]; other site 296591014963 putative PBP binding regions; other site 296591014964 iron-dicitrate transporter substrate-binding subunit; Provisional; Region: fecB; PRK11411 296591014965 Fe3+-siderophore binding domain FhuD. These proteins have been shown to function as initial receptors in ABC transport of Fe3+-siderophores in many eubacterial species. They belong to the TroA-like superfamily of helical backbone metal receptor proteins...; Region: FhuD; cd01146 296591014966 siderophore binding site; other site 296591014967 HpcH/HpaI aldolase/citrate lyase family; Region: HpcH_HpaI; cl17231 296591014968 Diaminopimelate decarboxylase [Amino acid transport and metabolism]; Region: LysA; COG0019 296591014969 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme PvsE; Region: PLPDE_III_PvsE_like; cd06843 296591014970 dimer interface [polypeptide binding]; other site 296591014971 active site 296591014972 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 296591014973 catalytic residues [active] 296591014974 substrate binding site [chemical binding]; other site 296591014975 IucA / IucC family; Region: IucA_IucC; pfam04183 296591014976 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 296591014977 drug efflux system protein MdtG; Provisional; Region: PRK09874 296591014978 IucA / IucC family; Region: IucA_IucC; pfam04183 296591014979 Ferric iron reductase FhuF-like transporter; Region: FhuF; pfam06276 296591014980 ATP-grasp domain; Region: ATP-grasp_4; pfam13535 296591014981 Outer membrane receptor for Fe3+-dicitrate [Inorganic ion transport and metabolism]; Region: FecA; COG4772 296591014982 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 296591014983 N-terminal plug; other site 296591014984 ligand-binding site [chemical binding]; other site 296591014985 Predicted membrane protein [Function unknown]; Region: COG2259 296591014986 Uncharacterized protein conserved in bacteria (DUF2063); Region: DUF2063; pfam09836 296591014987 hypothetical protein; Provisional; Region: PRK05409 296591014988 Predicted integral membrane protein (DUF2282); Region: DUF2282; pfam10048 296591014989 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 296591014990 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 296591014991 Transposase; Region: DDE_Tnp_ISL3; pfam01610 296591014992 RNA polymerase sigma factor; Provisional; Region: PRK12512 296591014993 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 296591014994 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 296591014995 DNA binding residues [nucleotide binding] 296591014996 Protein of unknown function (DUF1109); Region: DUF1109; pfam06532 296591014997 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 296591014998 metal-binding site [ion binding] 296591014999 putative mercuric transport protein; Provisional; Region: PRK13751 296591015000 putative transcriptional regulator MerR; Provisional; Region: PRK13752 296591015001 Helix-Turn-Helix DNA binding domain of the MerR1 transcription regulator; Region: HTH_MerR1; cd04783 296591015002 DNA binding residues [nucleotide binding] 296591015003 dimer interface [polypeptide binding]; other site 296591015004 mercury binding site [ion binding]; other site 296591015005 Putative hydrophobic ligand-binding SRPBCC domain of an uncharacterized subgroup of CalC- and Aha1-like proteins; Region: SRPBCC_CalC_Aha1-like_2; cd08895 296591015006 putative hydrophobic ligand binding site [chemical binding]; other site 296591015007 Predicted protein tyrosine phosphatase [General function prediction only]; Region: COG4551 296591015008 active site 296591015009 Helix-Turn-Helix DNA binding domain of MerR-like transcription regulators; Region: HTH_MerR-like; cd00592 296591015010 MerR HTH family regulatory protein; Region: MerR_1; pfam13411 296591015011 DNA binding residues [nucleotide binding] 296591015012 dimer interface [polypeptide binding]; other site 296591015013 tRNA delta(2)-isopentenylpyrophosphate transferase [Translation, ribosomal structure and biogenesis]; Region: MiaA; cl17639 296591015014 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 296591015015 Putative transposase; Region: Y2_Tnp; pfam04986 296591015016 tyrosine recombinase XerD; Region: recomb_XerD; TIGR02225 296591015017 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 296591015018 Int/Topo IB signature motif; other site 296591015019 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 296591015020 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 296591015021 substrate binding pocket [chemical binding]; other site 296591015022 membrane-bound complex binding site; other site 296591015023 hinge residues; other site 296591015024 Predicted membrane protein [Function unknown]; Region: COG2259 296591015025 Predicted metal-dependent hydrolase with the TIM-barrel fold [General function prediction only]; Region: COG1574 296591015026 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 296591015027 active site 296591015028 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3224 296591015029 Isochorismatase family; Region: Isochorismatase; pfam00857 296591015030 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 296591015031 catalytic triad [active] 296591015032 dimer interface [polypeptide binding]; other site 296591015033 conserved cis-peptide bond; other site 296591015034 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591015035 transcriptional activator TtdR; Provisional; Region: PRK09801 296591015036 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 296591015037 putative effector binding pocket; other site 296591015038 dimerization interface [polypeptide binding]; other site 296591015039 Transcriptional regulator [Transcription]; Region: LysR; COG0583 296591015040 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591015041 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 296591015042 putative effector binding pocket; other site 296591015043 putative dimerization interface [polypeptide binding]; other site 296591015044 N-acyl-D-aspartate/D-glutamate deacylase [Secondary metabolites biosynthesis, transport, and catabolism]; Region: COG3653 296591015045 D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics; Region: D-aminoacylase; cd01297 296591015046 active site 296591015047 putative substrate binding pocket [chemical binding]; other site 296591015048 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 296591015049 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzymes Similar to D-Serine Dehydratase and D-Threonine Aldolase, Unknown Group 1; Region: PLPDE_III_DSD_D-TA_like_1; cd06812 296591015050 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 296591015051 dimer interface [polypeptide binding]; other site 296591015052 active site 296591015053 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 296591015054 substrate binding site [chemical binding]; other site 296591015055 catalytic residue [active] 296591015056 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 296591015057 homotrimer interaction site [polypeptide binding]; other site 296591015058 putative active site [active] 296591015059 Type III Pyridoxal 5-phosphate (PLP)-Dependent Enzyme Low Specificity D-Threonine Aldolase; Region: PLPDE_III_LS_D-TA; cd06819 296591015060 Predicted amino acid aldolase or racemase [Amino acid transport and metabolism]; Region: COG3616 296591015061 dimer interface [polypeptide binding]; other site 296591015062 active site 296591015063 pyridoxal 5'-phosphate (PLP) binding site [chemical binding]; other site 296591015064 substrate binding site [chemical binding]; other site 296591015065 catalytic residue [active] 296591015066 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591015067 Di-haem cytochrome c peroxidase; Region: CCP_MauG; pfam03150 296591015068 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 296591015069 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 296591015070 ATP binding site [chemical binding]; other site 296591015071 Mg2+ binding site [ion binding]; other site 296591015072 G-X-G motif; other site 296591015073 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 296591015074 dimerization interface [polypeptide binding]; other site 296591015075 PAS fold; Region: PAS_4; pfam08448 296591015076 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 296591015077 putative active site [active] 296591015078 heme pocket [chemical binding]; other site 296591015079 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 296591015080 GAF domain; Region: GAF; pfam01590 296591015081 PAS fold; Region: PAS_3; pfam08447 296591015082 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 296591015083 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 296591015084 ATP binding site [chemical binding]; other site 296591015085 Mg2+ binding site [ion binding]; other site 296591015086 G-X-G motif; other site 296591015087 Response regulator receiver domain; Region: Response_reg; pfam00072 296591015088 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 296591015089 active site 296591015090 phosphorylation site [posttranslational modification] 296591015091 intermolecular recognition site; other site 296591015092 dimerization interface [polypeptide binding]; other site 296591015093 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 296591015094 dimer interface [polypeptide binding]; other site 296591015095 phosphorylation site [posttranslational modification] 296591015096 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 296591015097 ATP binding site [chemical binding]; other site 296591015098 Mg2+ binding site [ion binding]; other site 296591015099 G-X-G motif; other site 296591015100 Response regulator receiver domain; Region: Response_reg; pfam00072 296591015101 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 296591015102 active site 296591015103 phosphorylation site [posttranslational modification] 296591015104 intermolecular recognition site; other site 296591015105 dimerization interface [polypeptide binding]; other site 296591015106 phosphate regulon sensor kinase PhoR; Region: phoR_proteo; TIGR02966 296591015107 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 296591015108 dimer interface [polypeptide binding]; other site 296591015109 phosphorylation site [posttranslational modification] 296591015110 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 296591015111 ATP binding site [chemical binding]; other site 296591015112 Mg2+ binding site [ion binding]; other site 296591015113 G-X-G motif; other site 296591015114 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 296591015115 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 296591015116 active site 296591015117 phosphorylation site [posttranslational modification] 296591015118 intermolecular recognition site; other site 296591015119 dimerization interface [polypeptide binding]; other site 296591015120 FOG: CheY-like receiver [Signal transduction mechanisms]; Region: CheY; COG0784 296591015121 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 296591015122 active site 296591015123 phosphorylation site [posttranslational modification] 296591015124 intermolecular recognition site; other site 296591015125 Glyceraldehyde-3-phosphate dehydrogenase/erythrose-4-phosphate dehydrogenase [Carbohydrate transport and metabolism]; Region: GapA; COG0057 296591015126 Glyceraldehyde 3-phosphate dehydrogenase, NAD binding domain; Region: Gp_dh_N; smart00846 296591015127 Glyceraldehyde 3-phosphate dehydrogenase, C-terminal domain; Region: Gp_dh_C; pfam02800 296591015128 Transketolase [Carbohydrate transport and metabolism]; Region: TktA; COG0021 296591015129 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 296591015130 TPP-binding site [chemical binding]; other site 296591015131 dimer interface [polypeptide binding]; other site 296591015132 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 296591015133 PYR/PP interface [polypeptide binding]; other site 296591015134 dimer interface [polypeptide binding]; other site 296591015135 TPP binding site [chemical binding]; other site 296591015136 Transketolase, C-terminal domain; Region: Transketolase_C; pfam02780 296591015137 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 296591015138 NTP_transferase_like_1 is a member of the nucleotidyl transferase family; Region: NTP_transferase_like_1; cd06422 296591015139 Substrate binding site; other site 296591015140 metal-binding site 296591015141 proline aminopeptidase P II; Provisional; Region: PRK10879 296591015142 Aminopeptidase P, N-terminal domain; Region: AMP_N; pfam05195 296591015143 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 296591015144 active site 296591015145 RNAse HI family that includes Archaeal RNase HI; Region: RNase_HI_archaeal_like; cd09279 296591015146 RNA/DNA hybrid binding site [nucleotide binding]; other site 296591015147 active site 296591015148 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N2; pfam13495 296591015149 integron integrase; Region: integrase_gron; TIGR02249 296591015150 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 296591015151 active site 296591015152 DNA binding site [nucleotide binding] 296591015153 Int/Topo IB signature motif; other site 296591015154 Transposase zinc-binding domain; Region: Zn_Tnp_IS91; pfam14319 296591015155 Putative transposase; Region: Y2_Tnp; pfam04986 296591015156 Domain of unknown function DUF302; Region: DUF302; cl01364 296591015157 Uncharacterized conserved protein [Function unknown]; Region: COG1359 296591015158 Protein of unknown function (DUF1311); Region: DUF1311; pfam07007 296591015159 SEC-C motif; Region: SEC-C; pfam02810 296591015160 Peroxiredoxin [Posttranslational modification, protein turnover, chaperones]; Region: AhpC; COG0450 296591015161 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 296591015162 dimer interface [polypeptide binding]; other site 296591015163 decamer (pentamer of dimers) interface [polypeptide binding]; other site 296591015164 catalytic triad [active] 296591015165 Metallo-beta-lactamase superfamily; Region: Lactamase_B; cl00446 296591015166 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 296591015167 active site residue [active] 296591015168 Methyltransferase domain; Region: Methyltransf_23; pfam13489 296591015169 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 296591015170 S-adenosylmethionine binding site [chemical binding]; other site 296591015171 Zn-dependent hydrolases, including glyoxylases [General function prediction only]; Region: GloB; COG0491 296591015172 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 296591015173 dimerization interface [polypeptide binding]; other site 296591015174 putative DNA binding site [nucleotide binding]; other site 296591015175 putative Zn2+ binding site [ion binding]; other site 296591015176 Predicted transporter component [General function prediction only]; Region: COG2391 296591015177 Domain of unknown function (DUF4341); Region: DUF4341; pfam14241 296591015178 Predicted transporter component [General function prediction only]; Region: COG2391 296591015179 Sulphur transport; Region: Sulf_transp; pfam04143 296591015180 FOG: GAF domain [Signal transduction mechanisms]; Region: FhlA; COG2203 296591015181 GAF domain; Region: GAF; pfam01590 296591015182 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 296591015183 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 296591015184 Walker A motif; other site 296591015185 ATP binding site [chemical binding]; other site 296591015186 Walker B motif; other site 296591015187 arginine finger; other site 296591015188 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 296591015189 Rhodanese-related sulfurtransferase [Inorganic ion transport and metabolism]; Region: SseA; COG2897 296591015190 Rhodanese-like domain; Region: Rhodanese; pfam00581 296591015191 active site residue [active] 296591015192 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 296591015193 active site residue [active] 296591015194 OsmC-like protein; Region: OsmC; pfam02566 296591015195 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 296591015196 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 296591015197 active site 296591015198 Rubredoxin; Region: Rubredoxin; pfam00301 296591015199 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 296591015200 iron binding site [ion binding]; other site 296591015201 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_2; pfam07992 296591015202 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 296591015203 Rubrerythrin [Energy production and conversion]; Region: COG1592 296591015204 Rubrerythrin, ferritin-like diiron-binding domain; Region: Rubrerythrin; cd01041 296591015205 binuclear metal center [ion binding]; other site 296591015206 Rubredoxin [Energy production and conversion]; Region: COG1773 296591015207 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 296591015208 iron binding site [ion binding]; other site 296591015209 Predicted membrane protein (DUF2061); Region: DUF2061; cl01257 296591015210 NADH:flavorubredoxin oxidoreductase; Provisional; Region: PRK04965 296591015211 Medium chain reductase/dehydrogenase (MDR)/zinc-dependent alcohol dehydrogenase-like family; Region: MDR; cl16912 296591015212 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 296591015213 Malate dehydrogenase enzyme; Region: Malate_DH; pfam12434 296591015214 malic enzyme; Reviewed; Region: PRK12862 296591015215 Malic enzyme, N-terminal domain; Region: malic; pfam00390 296591015216 NAD(P) binding domain of malic enzyme (ME), subgroup 2; Region: NAD_bind_2_malic_enz; cd05311 296591015217 putative NAD(P) binding site [chemical binding]; other site 296591015218 Phosphotransacetylase [Energy production and conversion]; Region: Pta; COG0280 296591015219 RNase_Sa. Ribonucleases first isolated from Streptomyces aureofaciens. In general, ribonucleases cleave phosphodiester bonds in RNA and are essential for both non-specific RNA degradation and for numerous forms of RNA processing. RNAse Sa is a guanylate...; Region: RNase_Sa; cd00607 296591015220 active site 296591015221 barstar interaction site; other site 296591015222 Barstar_evA4336-like contains uncharacterized sequences similar to the uncharacterized, predicted RNAase inhibitor evA4336 found in Azoarcus sp. EvN1. This is a subfamily of the Barstar family of RNAase inhibitors. Barstar is an intracellular inhibitor...; Region: Barstar_evA4336-like; cd05141 296591015223 putative RNAase interaction site [polypeptide binding]; other site 296591015224 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed; Region: ksgA; PRK00274 296591015225 Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]; Region: KsgA; COG0030 296591015226 peptidyl-prolyl cis-trans isomerase SurA; Provisional; Region: PRK10770 296591015227 SurA N-terminal domain; Region: SurA_N; pfam09312 296591015228 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 296591015229 PPIC-type PPIASE domain; Region: Rotamase; pfam00639 296591015230 organic solvent tolerance protein; Provisional; Region: PRK04423 296591015231 OstA-like protein; Region: OstA; cl00844 296591015232 Organic solvent tolerance protein; Region: OstA_C; pfam04453 296591015233 Predicted phosphotransferase related to Ser/Thr protein kinases [General function prediction only]; Region: COG3178 296591015234 Phosphotransferase enzyme family; Region: APH; pfam01636 296591015235 16S ribosomal RNA methyltransferase RsmE; Provisional; Region: PRK11713 296591015236 Lysophospholipase [Lipid metabolism]; Region: PldB; COG2267 296591015237 Putative lysophospholipase; Region: Hydrolase_4; pfam12146 296591015238 hypothetical protein; Provisional; Region: PRK07907 296591015239 Uncharacterized M20 Dipeptidases; Region: M20_dipept_like_5; cd05682 296591015240 metal binding site [ion binding]; metal-binding site 296591015241 putative dimer interface [polypeptide binding]; other site 296591015242 Protein of unknown function DUF72; Region: DUF72; pfam01904 296591015243 phosphatidylserine decarboxylase; Reviewed; Region: psd; PRK00044 296591015244 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 296591015245 metal-binding site [ion binding] 296591015246 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 296591015247 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 296591015248 metal-binding site [ion binding] 296591015249 Cation transport ATPase [Inorganic ion transport and metabolism]; Region: ZntA; COG2217 296591015250 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 296591015251 metal-binding site [ion binding] 296591015252 E1-E2 ATPase; Region: E1-E2_ATPase; pfam00122 296591015253 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 296591015254 motif II; other site 296591015255 Helix-Turn-Helix DNA binding domain of CueR-like transcription regulators; Region: HTH_CueR; cd01108 296591015256 Cu(I)-responsive transcriptional regulator; Region: CueR; TIGR02044 296591015257 DNA binding residues [nucleotide binding] 296591015258 dimer interface [polypeptide binding]; other site 296591015259 copper binding site [ion binding]; other site 296591015260 Uncharacterized protein conserved in bacteria (DUF2086); Region: DUF2086; pfam09859 296591015261 alpha-ketoglutarate-dependent dioxygenase AlkB; Provisional; Region: PRK15401 296591015262 Hydroxypyruvate isomerase [Carbohydrate transport and metabolism]; Region: Hfi; COG3622 296591015263 putative aldolase; Validated; Region: PRK08130 296591015264 intersubunit interface [polypeptide binding]; other site 296591015265 active site 296591015266 Zn2+ binding site [ion binding]; other site 296591015267 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3395 296591015268 Nucleoside-diphosphate-sugar epimerases [Cell envelope biogenesis, outer membrane / Carbohydrate transport and metabolism]; Region: WcaG; COG0451 296591015269 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591015270 active site 296591015271 DctM-like transporters; Region: DctM; pfam06808 296591015272 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 296591015273 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 296591015274 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 296591015275 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 296591015276 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 296591015277 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 296591015278 Transcriptional regulators [Transcription]; Region: FadR; COG2186 296591015279 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591015280 DNA-binding site [nucleotide binding]; DNA binding site 296591015281 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 296591015282 Sulfate permease and related transporters (MFS superfamily) [Inorganic ion transport and metabolism]; Region: SUL1; COG0659 296591015283 Sulfate transporter N-terminal domain with GLY motif; Region: Sulfate_tra_GLY; pfam13792 296591015284 Sulfate transporter family; Region: Sulfate_transp; pfam00916 296591015285 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 296591015286 Chromate transport protein ChrA [Inorganic ion transport and metabolism]; Region: ChrA; COG2059 296591015287 Chromate transporter; Region: Chromate_transp; pfam02417 296591015288 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 296591015289 active site residue [active] 296591015290 Chromate resistance exported protein; Region: Chrome_Resist; pfam09828 296591015291 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 296591015292 S-adenosylmethionine binding site [chemical binding]; other site 296591015293 homoserine O-acetyltransferase; Provisional; Region: metX; PRK00175 296591015294 homoserine O-acetyltransferase; Region: homoserO_Ac_trn; TIGR01392 296591015295 Predicted membrane protein [Function unknown]; Region: COG2119 296591015296 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 296591015297 Uncharacterized protein family UPF0016; Region: UPF0016; pfam01169 296591015298 Ammonium Transporter Family; Region: Ammonium_transp; cl03012 296591015299 RNA polymerase sigma factor; Provisional; Region: PRK12520 296591015300 Sigma-70 region 2; Region: Sigma70_r2; pfam04542 296591015301 Sigma-70, region 4; Region: Sigma70_r4_2; pfam08281 296591015302 DNA binding residues [nucleotide binding] 296591015303 RNA-binding proteins (RRM domain) [General function prediction only]; Region: COG0724 296591015304 RNA recognition motif in Helicobacter pylori HP0827 protein and similar proteins; Region: RRM_HP0827_like; cd12399 296591015305 short chain dehydrogenase; Provisional; Region: PRK07024 296591015306 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591015307 NAD(P) binding site [chemical binding]; other site 296591015308 active site 296591015309 Lipopolysaccharide-assembly, LptC-related; Region: LptC; pfam06835 296591015310 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3117; cl01200 296591015311 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 296591015312 active site 296591015313 motif I; other site 296591015314 motif II; other site 296591015315 D-arabinose 5-phosphate isomerase; Provisional; Region: PRK10892 296591015316 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 296591015317 putative active site [active] 296591015318 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 296591015319 N-terminal domain of reverse transcriptase; Region: RVT_N; pfam13655 296591015320 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 296591015321 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 296591015322 putative active site [active] 296591015323 putative NTP binding site [chemical binding]; other site 296591015324 putative nucleic acid binding site [nucleotide binding]; other site 296591015325 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 296591015326 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 296591015327 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 296591015328 active site 296591015329 Kef-type K+ transport systems, membrane components [Inorganic ion transport and metabolism]; Region: KefB; COG0475 296591015330 putative cation:proton antiport protein; Provisional; Region: PRK10669 296591015331 TrkA-N domain; Region: TrkA_N; pfam02254 296591015332 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 296591015333 catalytic core [active] 296591015334 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 296591015335 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 296591015336 ligand binding site [chemical binding]; other site 296591015337 flexible hinge region; other site 296591015338 tRNA modification GTPase TrmE; Reviewed; Region: trmE; PRK05291 296591015339 GTP-binding protein TrmE N-terminus; Region: TrmE_N; pfam10396 296591015340 trmE is a tRNA modification GTPase; Region: trmE; cd04164 296591015341 G1 box; other site 296591015342 GTP/Mg2+ binding site [chemical binding]; other site 296591015343 Switch I region; other site 296591015344 G2 box; other site 296591015345 Switch II region; other site 296591015346 G3 box; other site 296591015347 G4 box; other site 296591015348 G5 box; other site 296591015349 Catalytic cysteine-containing C-terminus of GTPase, MnmE; Region: GTPase_Cys_C; pfam12631 296591015350 membrane protein insertase; Provisional; Region: PRK01318 296591015351 membrane protein insertase, YidC/Oxa1 family, C-terminal domain; Region: yidC_oxa1_cterm; TIGR03592 296591015352 Haemolytic domain; Region: Haemolytic; cl00506 296591015353 Ribonuclease P; Region: Ribonuclease_P; pfam00825 296591015354 50S ribosomal protein L34; Reviewed; Region: rpmH; PRK00399 296591015355 Domain of unknown function (DUF1768); Region: DUF1768; cl01271 296591015356 Methyltransferase domain; Region: Methyltransf_26; pfam13659 296591015357 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 296591015358 DEAD-like helicases superfamily; Region: DEXDc; smart00487 296591015359 DNA methylase [Transcription / DNA replication, recombination, and repair]; Region: COG4646 296591015360 helicase superfamily c-terminal domain; Region: HELICc; smart00490 296591015361 nucleotide binding region [chemical binding]; other site 296591015362 ATP-binding site [chemical binding]; other site 296591015363 Response regulator containing a CheY-like receiver domain and an HTH DNA-binding domain [Signal transduction mechanisms / Transcription]; Region: CitB; COG2197 296591015364 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 296591015365 DNA binding residues [nucleotide binding] 296591015366 dimerization interface [polypeptide binding]; other site 296591015367 Cytochrome P450; Region: p450; pfam00067 296591015368 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 296591015369 Glycosyl transferases, related to UDP-glucuronosyltransferase [Carbohydrate transport and metabolism / Signal transduction mechanisms]; Region: COG1819 296591015370 This family includes the Gtfs, a group of homologous glycosyltransferases involved in the final stages of the biosynthesis of antibiotics vancomycin and related chloroeremomycin. Gtfs transfer sugar moieties from an activated NDP-sugar donor to the...; Region: GT1_Gtf_like; cd03784 296591015371 homodimer interface [polypeptide binding]; other site 296591015372 active site 296591015373 TDP-binding site; other site 296591015374 acceptor substrate-binding pocket; other site 296591015375 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 296591015376 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 296591015377 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 296591015378 This family is most closely related to the GT1 family of glycosyltransferases. ExpC in Rhizobium meliloti has been shown to be involved in the biosynthesis of galactoglucan (exopolysaccharide II); Region: GT1_ExpC_like; cd03818 296591015379 putative ADP-binding pocket [chemical binding]; other site 296591015380 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 296591015381 type I secretion outer membrane protein, TolC family; Region: type_I_sec_TolC; TIGR01844 296591015382 type I secretion membrane fusion protein, HlyD family; Region: type_I_hlyD; TIGR01843 296591015383 Biotin-lipoyl like; Region: Biotin_lipoyl_2; pfam13533 296591015384 HlyD family secretion protein; Region: HlyD_3; pfam13437 296591015385 ABC-type protease/lipase transport system, ATPase and permease components [General function prediction only]; Region: ArpD; COG4618 296591015386 ABC transporter transmembrane region; Region: ABC_membrane; pfam00664 296591015387 ATP-binding cassette domain of PrtD, subfamily C; Region: ABCC_Protease_Secretion; cd03246 296591015388 Walker A/P-loop; other site 296591015389 ATP binding site [chemical binding]; other site 296591015390 Q-loop/lid; other site 296591015391 ABC transporter signature motif; other site 296591015392 Walker B; other site 296591015393 D-loop; other site 296591015394 H-loop/switch region; other site 296591015395 Peptidase M10 serralysin C terminal; Region: Peptidase_M10_C; pfam08548 296591015396 Glycosyl hydrolase catalytic core; Region: Glyco_hydro_cc; pfam11790 296591015397 Methyltransferase domain; Region: Methyltransf_24; pfam13578 296591015398 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 296591015399 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 296591015400 TPR motif; other site 296591015401 binding surface 296591015402 GSCFA family; Region: GSCFA; pfam08885 296591015403 This family is most closely related to the GT1 family of glycosyltransferases. mtfB (mannosyltransferase B) in E. coli has been shown to direct the growth of the O9-specific polysaccharide chain. It transfers two mannoses into the position 3 of the...; Region: GT1_mtfB_like; cd03809 296591015404 Glycosyltransferase [Cell envelope biogenesis, outer membrane]; Region: RfaG; COG0438 296591015405 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; cl09156 296591015406 Polysaccharide pyruvyl transferase; Region: PS_pyruv_trans; pfam04230 296591015407 Polysaccharide biosynthesis/export protein; Region: Poly_export; pfam02563 296591015408 putative polysaccharide export protein, PEP-CTERM sytem-associated; Region: pepcterm_export; TIGR03027 296591015409 polysaccharide export inner-membrane protein, BexC/CtrB/KpsE family; Region: BexC_CtrB_KpsE; TIGR01010 296591015410 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 296591015411 Vi polysaccharide export ATP-binding protein VexC; Provisional; Region: PRK15177 296591015412 Walker A/P-loop; other site 296591015413 ATP binding site [chemical binding]; other site 296591015414 Q-loop/lid; other site 296591015415 ABC transporter signature motif; other site 296591015416 Walker B; other site 296591015417 D-loop; other site 296591015418 H-loop/switch region; other site 296591015419 ABC-type polysaccharide/polyol phosphate export systems, permease component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]; Region: TagG; COG1682 296591015420 ABC-2 type transporter; Region: ABC2_membrane; cl17235 296591015421 mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase; Region: GMP_PMI; TIGR01479 296591015422 GDP-M1P_Guanylyltransferase catalyzes the formation of GDP-Mannose; Region: GDP-M1P_Guanylyltransferase; cd02509 296591015423 Substrate binding site; other site 296591015424 Mannose-6-phosphate isomerase; Region: MannoseP_isomer; pfam01050 296591015425 Capsule polysaccharide export protein [Cell envelope biogenesis, outer membrane]; Region: KpsS; COG3562 296591015426 Capsule polysaccharide biosynthesis protein; Region: Capsule_synth; pfam05159 296591015427 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 296591015428 Protein Disulfide Oxidoreductases and Other Proteins with a Thioredoxin fold; Region: Thioredoxin_like; cl00388 296591015429 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 296591015430 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 296591015431 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 296591015432 IHF - DNA interface [nucleotide binding]; other site 296591015433 IHF dimer interface [polypeptide binding]; other site 296591015434 PRTRC system protein D; Region: PRTRC_D; TIGR03739 296591015435 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 296591015436 Mg binding site [ion binding]; other site 296591015437 nucleotide binding site [chemical binding]; other site 296591015438 putative protofilament interface [polypeptide binding]; other site 296591015439 Phage integrase, N-terminal; Region: Integrase_l_N; pfam12834 296591015440 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 296591015441 active site 296591015442 catalytic residues [active] 296591015443 DNA binding site [nucleotide binding] 296591015444 Int/Topo IB signature motif; other site 296591015445 Putative transposase of IS4/5 family (DUF4096); Region: DUF4096; pfam13340 296591015446 Catalytic domain of EDTA-resistant nuclease Nuc from Salmonella typhimurium and similar proteins; Region: PLDc_Nuc; cd09170 296591015447 PLD-like domain; Region: PLDc_2; pfam13091 296591015448 putative active site [active] 296591015449 catalytic site [active] 296591015450 VRR-NUC domain; Region: VRR_NUC; pfam08774 296591015451 P-loop containing region of AAA domain; Region: AAA_29; cl17516 296591015452 Domain of unknown function (DUF4297); Region: DUF4297; pfam14130 296591015453 Glutathione-dependent formaldehyde-activating enzyme; Region: GFA; pfam04828 296591015454 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 296591015455 Catalytic site [active] 296591015456 DNA polymerase V subunit UmuC; Reviewed; Region: umuC; PRK03609 296591015457 umuC subunit of DNA Polymerase V; Region: PolY_Pol_V_umuC; cd01700 296591015458 active site 296591015459 DNA binding site [nucleotide binding] 296591015460 Domain of unknown function (DUF4113); Region: DUF4113; pfam13438 296591015461 Protein of unknown function (DUF3584); Region: DUF3584; pfam12128 296591015462 Protein of unknown function (DUF1173); Region: DUF1173; pfam06666 296591015463 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 296591015464 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 296591015465 Initiator Replication protein; Region: Rep_3; pfam01051 296591015466 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 296591015467 non-specific DNA binding site [nucleotide binding]; other site 296591015468 salt bridge; other site 296591015469 sequence-specific DNA binding site [nucleotide binding]; other site 296591015470 Methyltransferase domain; Region: Methyltransf_26; pfam13659 296591015471 Methyltransferase domain; Region: Methyltransf_27; pfam13708 296591015472 Metalloenzyme superfamily; Region: Metalloenzyme; pfam01676 296591015473 Protein of unknown function (DUF3800); Region: DUF3800; pfam12686 296591015474 response regulator FixJ; Provisional; Region: fixJ; PRK09390 296591015475 Signal transduction histidine kinase [Signal transduction mechanisms]; Region: BaeS; COG0642 296591015476 Histidine Kinase A (dimerization/phosphoacceptor) domain; Histidine Kinase A dimers are formed through parallel association of 2 domains creating 4-helix bundles; usually these domains contain a conserved His residue and are activated via...; Region: HisKA; cl00080 296591015477 dimer interface [polypeptide binding]; other site 296591015478 phosphorylation site [posttranslational modification] 296591015479 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 296591015480 ATP binding site [chemical binding]; other site 296591015481 Mg2+ binding site [ion binding]; other site 296591015482 G-X-G motif; other site 296591015483 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 296591015484 non-specific DNA binding site [nucleotide binding]; other site 296591015485 salt bridge; other site 296591015486 sequence-specific DNA binding site [nucleotide binding]; other site 296591015487 Putative inner membrane protein (DUF1819); Region: DUF1819; pfam08849 296591015488 Domain of unknown function (DUF1788); Region: DUF1788; pfam08747 296591015489 putative toxin-antitoxin system antitoxin component, TIGR02293 family; Region: TAS_TIGR02293 296591015490 Protein of unknown function (DUF2384); Region: DUF2384; pfam09722 296591015491 RES domain; Region: RES; pfam08808 296591015492 Methyltransferase domain; Region: Methyltransf_26; pfam13659 296591015493 Eco57I restriction-modification methylase; Region: Eco57I; pfam07669 296591015494 Nuclease-related domain; Region: NERD; pfam08378 296591015495 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 296591015496 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 296591015497 substrate binding site [chemical binding]; other site 296591015498 activation loop (A-loop); other site 296591015499 Aminoglycoside 3'-phosphotransferase (APH) and Choline Kinase (ChoK) family. The APH/ChoK 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)...; Region: APH_ChoK_like; cl17270 296591015500 active site 296591015501 substrate binding site [chemical binding]; other site 296591015502 Serine/threonine protein kinase [General function prediction only / Signal transduction mechanisms / Transcription / DNA replication, recombination, and repair]; Region: SPS1; COG0515 296591015503 ATP binding site [chemical binding]; other site 296591015504 AAA domain; Region: AAA_11; pfam13086 296591015505 Part of AAA domain; Region: AAA_19; pfam13245 296591015506 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 296591015507 AAA domain; Region: AAA_12; pfam13087 296591015508 TIGR02687 family protein; Region: TIGR02687 296591015509 PglZ domain; Region: PglZ; pfam08665 296591015510 conserved hypothetical protein; Region: Lon_rel_chp; TIGR02653 296591015511 Putative ATP-dependent Lon protease; Region: Lon_2; pfam13337 296591015512 Lon protease (S16) C-terminal proteolytic domain; Region: Lon_C; pfam05362 296591015513 Polymerase and Histidinol Phosphatase domain; Region: PHP; cl17102 296591015514 DNA polymerase alpha chain like domain; Region: POLIIIAc; smart00481 296591015515 active site 296591015516 AAA domain; Region: AAA_23; pfam13476 296591015517 AAA domain; Region: AAA_21; pfam13304 296591015518 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 296591015519 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 296591015520 non-specific DNA binding site [nucleotide binding]; other site 296591015521 salt bridge; other site 296591015522 sequence-specific DNA binding site [nucleotide binding]; other site 296591015523 Nucleotidyl transferase of unknown function (DUF1814); Region: DUF1814; pfam08843 296591015524 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 296591015525 non-specific DNA binding site [nucleotide binding]; other site 296591015526 salt bridge; other site 296591015527 sequence-specific DNA binding site [nucleotide binding]; other site 296591015528 Flagellin N-methylase; Region: FliB; cl00497 296591015529 Phage integrase protein; Region: DUF3701; pfam12482 296591015530 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 296591015531 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 296591015532 active site 296591015533 DNA binding site [nucleotide binding] 296591015534 Int/Topo IB signature motif; other site 296591015535 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 296591015536 Active Sites [active] 296591015537 ParA-like protein; Provisional; Region: PHA02518 296591015538 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 296591015539 P-loop; other site 296591015540 Magnesium ion binding site [ion binding]; other site 296591015541 ParB/RepB/Spo0J family partition protein; Region: parB_part; TIGR00180 296591015542 ParB-like nuclease domain; Region: ParB; smart00470 296591015543 TrfA protein; Region: TrfA; pfam07042 296591015544 Replication initiator protein A; Region: RPA; cl17860 296591015545 PDDEXK-like domain of unknown function (DUF3799); Region: DUF3799; pfam12684 296591015546 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 296591015547 conjugal transfer protein TraB; Provisional; Region: PRK13825 296591015548 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 296591015549 ParB-like nuclease domain; Region: ParB; smart00470 296591015550 PRTRC system protein E; Region: PRTRC_E; TIGR03741 296591015551 PRTRC system protein C; Region: PRTRC_C; TIGR03738 296591015552 ERCC4 domain; Region: ERCC4; smart00891 296591015553 H3TH domains of structure-specific 5' nucleases (or flap endonuclease-1-like) involved in DNA replication, repair, and recombination; Region: H3TH_StructSpec-5'-nucleases; cl14815 296591015554 Helix-hairpin-helix motif; Region: HHH; pfam00633 296591015555 helix-hairpin-helix signature motif; other site 296591015556 PRTRC system protein F; Region: PRTRC_F; TIGR03742 296591015557 Alpha-helical domain 2; Region: alpha-hel2; pfam14456 296591015558 PRTRC system protein B; Region: PRTRC_B; TIGR03737 296591015559 Domain of unknown function (DUF2016); Region: DUF2016; pfam09436 296591015560 PRTRC system protein A; Region: PRTRC_A; TIGR03735 296591015561 Prokaryotic homologs of the JAB domain; Region: Prok-JAB; pfam14464 296591015562 PRTRC system ThiF family protein; Region: PRTRC_ThiF; TIGR03736 296591015563 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cl17196 296591015564 ATP binding site [chemical binding]; other site 296591015565 substrate interface [chemical binding]; other site 296591015566 SIR2-like domain; Region: SIR2_2; pfam13289 296591015567 Domain of unknown function DUF87; Region: DUF87; pfam01935 296591015568 HerA helicase [Replication, recombination, and repair]; Region: COG0433 296591015569 Superfamily I DNA and RNA helicases [DNA replication, recombination, and repair]; Region: UvrD; COG0210 296591015570 Part of AAA domain; Region: AAA_19; pfam13245 296591015571 Family description; Region: UvrD_C_2; pfam13538 296591015572 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 296591015573 RWP-RK domain; Region: RWP-RK; pfam02042 296591015574 Helix-turn-helix domain; Region: HTH_17; pfam12728 296591015575 Protein of unknown function (DUF2726); Region: DUF2726; pfam10881 296591015576 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 296591015577 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 296591015578 non-specific DNA binding site [nucleotide binding]; other site 296591015579 salt bridge; other site 296591015580 sequence-specific DNA binding site [nucleotide binding]; other site 296591015581 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 296591015582 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 296591015583 non-specific DNA binding site [nucleotide binding]; other site 296591015584 salt bridge; other site 296591015585 sequence-specific DNA binding site [nucleotide binding]; other site 296591015586 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3666 296591015587 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 296591015588 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 296591015589 Sugar kinases, ribokinase family [Carbohydrate transport and metabolism]; Region: RbsK; COG0524 296591015590 2-keto-3-deoxygluconate kinase (KdgK) phosphorylates 2-keto-3-deoxygluconate (KDG) to form 2-keto-3-deoxy-6-phosphogluconate (KDGP). KDG is the common intermediate product, that allows organisms to channel D-glucuronate and/or D-galacturinate into the...; Region: KdgK; cd01166 296591015591 substrate binding site [chemical binding]; other site 296591015592 Demethylmenaquinone methyltransferase; Region: Methyltransf_6; cl00480 296591015593 C-terminal binding protein (CtBP), D-isomer-specific 2-hydroxyacid dehydrogenases related repressor; Region: CtBP_dh; cd05299 296591015594 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 296591015595 ligand binding site [chemical binding]; other site 296591015596 NAD binding site [chemical binding]; other site 296591015597 catalytic site [active] 296591015598 TRAP-type C4-dicarboxylate transport system, periplasmic component [Carbohydrate transport and metabolism]; Region: DctP; COG1638 296591015599 Bacterial extracellular solute-binding protein, family 7; Region: SBP_bac_7; pfam03480 296591015600 DctM-like transporters; Region: DctM; pfam06808 296591015601 TRAP-type C4-dicarboxylate transport system, large permease component [Carbohydrate transport and metabolism]; Region: DctQ; COG1593 296591015602 TRAP-type C4-dicarboxylate transport system, small permease component [Carbohydrate transport and metabolism]; Region: DctM; COG3090 296591015603 Transcriptional regulators [Transcription]; Region: GntR; COG1802 296591015604 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591015605 DNA-binding site [nucleotide binding]; DNA binding site 296591015606 FCD domain; Region: FCD; pfam07729 296591015607 transcriptional activator TtdR; Provisional; Region: PRK09801 296591015608 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591015609 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 296591015610 putative effector binding pocket; other site 296591015611 dimerization interface [polypeptide binding]; other site 296591015612 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591015613 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 296591015614 CoA-transferase family III; Region: CoA_transf_3; pfam02515 296591015615 FAD/FMN-containing dehydrogenases [Energy production and conversion]; Region: GlcD; COG0277 296591015616 FAD binding domain; Region: FAD_binding_4; pfam01565 296591015617 DNA-binding transcriptional regulator CynR; Provisional; Region: PRK11242 296591015618 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591015619 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 296591015620 dimerization interface [polypeptide binding]; other site 296591015621 Transcriptional regulators [Transcription]; Region: PurR; COG1609 296591015622 Helix-turn-helix (HTH) DNA binding domain of the LacI family of transcriptional regulators; Region: HTH_LacI; cd01392 296591015623 DNA binding site [nucleotide binding] 296591015624 domain linker motif; other site 296591015625 Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily; Region: PBP1_LacI_sugar_binding_like; cd06267 296591015626 dimerization interface [polypeptide binding]; other site 296591015627 ligand binding site [chemical binding]; other site 296591015628 FAD dependent oxidoreductase; Region: FAD_oxidored; pfam12831 296591015629 Dehydratase family; Region: ILVD_EDD; pfam00920 296591015630 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591015631 Transcriptional regulators [Transcription]; Region: FadR; COG2186 296591015632 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591015633 DNA-binding site [nucleotide binding]; DNA binding site 296591015634 This entry represents the C-terminal ligand binding domain of many members of the GntR family; Region: FCD; smart00895 296591015635 D-glycerate dehydrogenase/hydroxypyruvate reductase (GDH); Region: GDH; cd05301 296591015636 dimerization interface [polypeptide binding]; other site 296591015637 Lactate dehydrogenase and related dehydrogenases [Energy production and conversion / Coenzyme metabolism / General function prediction only]; Region: LdhA; COG1052 296591015638 ligand binding site [chemical binding]; other site 296591015639 NADP binding site [chemical binding]; other site 296591015640 catalytic site [active] 296591015641 succinic semialdehyde dehydrogenase; Region: PLN02278 296591015642 Mitochondrial succinate-semialdehyde dehydrogenase and ALDH family members 5A1 and 5F1-like; Region: ALDH_F5_SSADH_GabD; cd07103 296591015643 tetramerization interface [polypeptide binding]; other site 296591015644 NAD(P) binding site [chemical binding]; other site 296591015645 catalytic residues [active] 296591015646 3-hydroxyisobutyrate dehydrogenase and related beta-hydroxyacid dehydrogenases [Lipid metabolism]; Region: MmsB; COG2084 296591015647 6-phosphogluconate dehydrogenase-like protein; Reviewed; Region: PRK09599 296591015648 Phosphoglycerate dehydrogenase and related dehydrogenases [Amino acid transport and metabolism]; Region: SerA; COG0111 296591015649 Phosphoglycerate dehydrogenases, NAD-binding and catalytic domains; Region: PGDH_4; cd12173 296591015650 ligand binding site [chemical binding]; other site 296591015651 NAD binding site [chemical binding]; other site 296591015652 dimerization interface [polypeptide binding]; other site 296591015653 catalytic site [active] 296591015654 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 296591015655 Mandelate racemase (MR)-like subfamily of the enolase superfamily. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic residues; Region: MR_like; cd03316 296591015656 active site pocket [active] 296591015657 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591015658 galactonate dehydratase; Provisional; Region: PRK14017 296591015659 Mandelate racemase (MR)-like subfamily of the enolase superfamily, subgroup 4. Enzymes of this subgroup share three conserved carboxylate ligands for the essential divalent metal ion (usually Mg2+), two aspartates and a glutamate, and conserved catalytic...; Region: MR_like_4; cd03329 296591015660 putative active site pocket [active] 296591015661 metal binding site [ion binding]; metal-binding site 296591015662 Protein of unknown function DUF262; Region: DUF262; pfam03235 296591015663 putative transposase OrfB; Reviewed; Region: PHA02517 296591015664 HTH-like domain; Region: HTH_21; pfam13276 296591015665 Integrase core domain; Region: rve; pfam00665 296591015666 Integrase core domain; Region: rve_3; pfam13683 296591015667 Transposase; Region: HTH_Tnp_1; cl17663 296591015668 Conserved protein/domain typically associated with flavoprotein oxygenases, DIM6/NTAB family [General function prediction only]; Region: COG1853 296591015669 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 296591015670 Type I periplasmic binding component of active transport systems that are predicted to be involved in 2-nitrobenzoic acid degradation pathway; Region: PBP1_Nba_like; cd06359 296591015671 putative ligand binding site [chemical binding]; other site 296591015672 Predicted flavoprotein [General function prediction only]; Region: COG0431 296591015673 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 296591015674 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 296591015675 TM-ABC transporter signature motif; other site 296591015676 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 296591015677 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 296591015678 TM-ABC transporter signature motif; other site 296591015679 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 296591015680 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 296591015681 Walker A/P-loop; other site 296591015682 ATP binding site [chemical binding]; other site 296591015683 Q-loop/lid; other site 296591015684 ABC transporter signature motif; other site 296591015685 Walker B; other site 296591015686 D-loop; other site 296591015687 H-loop/switch region; other site 296591015688 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 296591015689 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 296591015690 Walker A/P-loop; other site 296591015691 ATP binding site [chemical binding]; other site 296591015692 Q-loop/lid; other site 296591015693 ABC transporter signature motif; other site 296591015694 Walker B; other site 296591015695 D-loop; other site 296591015696 H-loop/switch region; other site 296591015697 2-hydroxymuconic semialdehyde dehydrogenase; Region: OH_muco_semi_DH; TIGR03216 296591015698 Human aldehyde dehydrogenase family 8 member A1-like; Region: ALDH_F8_HMSADH; cd07093 296591015699 NAD binding site [chemical binding]; other site 296591015700 catalytic residues [active] 296591015701 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 296591015702 homotrimer interaction site [polypeptide binding]; other site 296591015703 putative active site [active] 296591015704 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 296591015705 acetaldehyde dehydrogenase; Validated; Region: PRK08300 296591015706 Semialdehyde dehydrogenase, NAD binding domain; Region: Semialdhyde_dh; smart00859 296591015707 Prokaryotic acetaldehyde dehydrogenase, dimerisation; Region: AcetDehyd-dimer; pfam09290 296591015708 4-hyroxy-2-oxovalerate/4-hydroxy-2-oxopentanoic acid aldolase,; Validated; Region: PRK08195 296591015709 4-hydroxy-2-oxovalerate aldolase, N-terminal catalytic TIM barrel domain; Region: DRE_TIM_HOA; cd07943 296591015710 active site 296591015711 catalytic residues [active] 296591015712 metal binding site [ion binding]; metal-binding site 296591015713 DmpG-like communication domain; Region: DmpG_comm; pfam07836 296591015714 Fumarylacetoacetate (FAA) hydrolase family; Region: FAA_hydrolase; cl11421 296591015715 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 296591015716 homotrimer interaction site [polypeptide binding]; other site 296591015717 putative active site [active] 296591015718 3-hydroxyanthranilate 3,4-dioxygenase; Provisional; Region: PRK13264 296591015719 Amidohydrolase; Region: Amidohydro_2; pfam04909 296591015720 pca operon transcription factor PcaQ; Region: TF_pcaQ; TIGR02424 296591015721 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591015722 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 296591015723 dimerization interface [polypeptide binding]; other site 296591015724 NADPH:quinone reductase and related Zn-dependent oxidoreductases [Energy production and conversion / General function prediction only]; Region: Qor; COG0604 296591015725 alcohol dehydrogenase and quinone reductase-like medium chain degydrogenases/reductases; Region: MDR_like_2; cd05289 296591015726 putative NAD(P) binding site [chemical binding]; other site 296591015727 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 296591015728 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 296591015729 Helix-turn-helix domain; Region: HTH_28; pfam13518 296591015730 putative transposase OrfB; Reviewed; Region: PHA02517 296591015731 HTH-like domain; Region: HTH_21; pfam13276 296591015732 Integrase core domain; Region: rve; pfam00665 296591015733 Integrase core domain; Region: rve_2; pfam13333 296591015734 ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]; Region: LivK; COG0683 296591015735 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 296591015736 GMP synthase - Glutamine amidotransferase domain [Nucleotide transport and metabolism]; Region: GuaA; COG0518 296591015737 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain; Region: GATase1_1; cd01741 296591015738 catalytic triad [active] 296591015739 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 296591015740 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 296591015741 Walker A/P-loop; other site 296591015742 ATP binding site [chemical binding]; other site 296591015743 Q-loop/lid; other site 296591015744 ABC transporter signature motif; other site 296591015745 Walker B; other site 296591015746 D-loop; other site 296591015747 H-loop/switch region; other site 296591015748 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 296591015749 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 296591015750 Walker A/P-loop; other site 296591015751 ATP binding site [chemical binding]; other site 296591015752 Q-loop/lid; other site 296591015753 ABC transporter signature motif; other site 296591015754 Walker B; other site 296591015755 D-loop; other site 296591015756 H-loop/switch region; other site 296591015757 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 296591015758 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 296591015759 TM-ABC transporter signature motif; other site 296591015760 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 296591015761 Branched-chain amino acid transport system / permease component; Region: BPD_transp_2; pfam02653 296591015762 TM-ABC transporter signature motif; other site 296591015763 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 296591015764 Type 1 periplasmic binding fold superfamily; Region: Periplasmic_Binding_Protein_Type_1; cl10011 296591015765 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 296591015766 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 296591015767 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 296591015768 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 296591015769 catalytic loop [active] 296591015770 iron binding site [ion binding]; other site 296591015771 Glutamine synthetase [Amino acid transport and metabolism]; Region: GlnA; COG0174 296591015772 Glutamine synthetase, beta-Grasp domain; Region: Gln-synt_N; pfam03951 296591015773 Glutamine synthetase, catalytic domain; Region: Gln-synt_C; pfam00120 296591015774 Rieske non-heme iron oxygenase (RO) family, Phthalate 4,5-dioxygenase (PhDO)-like subfamily, N-terminal Rieske domain of the oxygenase alpha subunit; composed of the oxygenase alpha subunits of PhDO and similar proteins including 3-chlorobenzoate 3; Region: Rieske_RO_Alpha_PhDO_like; cd03479 296591015775 Phenylpropionate dioxygenase and related ring-hydroxylating dioxygenases, large terminal subunit [Inorganic ion transport and metabolism / General function prediction only]; Region: HcaE; COG4638 296591015776 C-terminal catalytic domain of the oxygenase alpha subunit of dicamba O-demethylase and related aromatic ring hydroxylating dioxygenases; Region: RHO_alpha_C_DMO-like; cd08878 296591015777 alpha subunit interface [polypeptide binding]; other site 296591015778 active site 296591015779 substrate binding site [chemical binding]; other site 296591015780 Fe binding site [ion binding]; other site 296591015781 Transcriptional regulators [Transcription]; Region: GntR; COG1802 296591015782 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591015783 DNA-binding site [nucleotide binding]; DNA binding site 296591015784 FCD domain; Region: FCD; pfam07729 296591015785 Domain of unknown function (DUF955); Region: DUF955; pfam06114 296591015786 Predicted transcriptional regulators [Transcription]; Region: HipB; COG1396 296591015787 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 296591015788 non-specific DNA binding site [nucleotide binding]; other site 296591015789 salt bridge; other site 296591015790 sequence-specific DNA binding site [nucleotide binding]; other site 296591015791 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 296591015792 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 296591015793 Walker A motif; other site 296591015794 ATP binding site [chemical binding]; other site 296591015795 Walker B motif; other site 296591015796 arginine finger; other site 296591015797 HORMA domain; Region: HORMA; pfam02301 296591015798 Nucleotidyltransferase (NT) domain of 2'5'-oligoadenylate (2-5A)synthetase (2-5OAS) and class I CCA-adding enzyme; Region: NT_2-5OAS_ClassI-CCAase; cd05400 296591015799 active site 296591015800 NTP binding site [chemical binding]; other site 296591015801 metal binding triad [ion binding]; metal-binding site 296591015802 Uncharacterized subfamily of Uracil-DNA glycosylases; Region: UDG_like_1; cd10033 296591015803 putative uracil binding site [chemical binding]; other site 296591015804 putative active site [active] 296591015805 Uncharacterized conserved protein [Function unknown]; Region: COG3189 296591015806 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 296591015807 Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators; Region: WHTH_GntR; cd07377 296591015808 DNA-binding site [nucleotide binding]; DNA binding site 296591015809 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 296591015810 pyridoxal 5'-phosphate binding site [chemical binding]; other site 296591015811 homodimer interface [polypeptide binding]; other site 296591015812 catalytic residue [active] 296591015813 Protein of unknown function (DUF3788); Region: DUF3788; pfam12663 296591015814 Cupin domain; Region: Cupin_2; pfam07883 296591015815 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 296591015816 dimer interface [polypeptide binding]; other site 296591015817 FMN binding site [chemical binding]; other site 296591015818 Cupin; Region: Cupin_6; pfam12852 296591015819 helix_turn_helix, arabinose operon control protein; Region: HTH_ARAC; smart00342 296591015820 Bacterial regulatory helix-turn-helix proteins, AraC family; Region: HTH_AraC; pfam00165 296591015821 Uncharacterized conserved protein [Function unknown]; Region: COG2128 296591015822 alkylhydroperoxidase AhpD family core domain; Region: ahpD_dom; TIGR00778 296591015823 Uncharacterized conserved protein [Function unknown]; Region: COG2128 296591015824 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 296591015825 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 296591015826 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 296591015827 C-terminal domain interface [polypeptide binding]; other site 296591015828 GSH binding site (G-site) [chemical binding]; other site 296591015829 dimer interface [polypeptide binding]; other site 296591015830 C-terminal, alpha helical domain of Ure2p and related Glutathione S-transferase-like proteins; Region: GST_C_Ure2p_like; cd03178 296591015831 dimer interface [polypeptide binding]; other site 296591015832 N-terminal domain interface [polypeptide binding]; other site 296591015833 Flavodoxin-like fold; Region: Flavodoxin_2; cl00438 296591015834 NADPH-dependent FMN reductase; Region: FMN_red; pfam03358 296591015835 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 296591015836 Acetyltransferase (GNAT) domain; Region: Acetyltransf_10; pfam13673 296591015837 N-Acyltransferase superfamily: Various enzymes that characteristically catalyze the transfer of an acyl group to a substrate; Region: NAT_SF; cd04301 296591015838 Coenzyme A binding pocket [chemical binding]; other site 296591015839 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 296591015840 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 296591015841 C-terminal domain interface [polypeptide binding]; other site 296591015842 GSH binding site (G-site) [chemical binding]; other site 296591015843 dimer interface [polypeptide binding]; other site 296591015844 C-terminal, alpha helical domain of Escherichia coli YfcG Glutathione S-transferases and related uncharacterized proteins; Region: GST_C_YfcG_like; cd10291 296591015845 N-terminal domain interface [polypeptide binding]; other site 296591015846 putative dimer interface [polypeptide binding]; other site 296591015847 active site 296591015848 GSH-dependent disulfide bond oxidoreductase; Provisional; Region: PRK13972 296591015849 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 296591015850 C-terminal domain interface [polypeptide binding]; other site 296591015851 GSH binding site (G-site) [chemical binding]; other site 296591015852 dimer interface [polypeptide binding]; other site 296591015853 C-terminal, alpha helical domain of the Glutathione S-transferase family; Region: GST_C_family; cl02776 296591015854 N-terminal domain interface [polypeptide binding]; other site 296591015855 dimer interface [polypeptide binding]; other site 296591015856 substrate binding pocket (H-site) [chemical binding]; other site 296591015857 Mandelate racemase (MR) catalyzes the Mg2+-dependent 1,1-proton transfer reaction that interconverts the enantiomers of mandelic acid. MR is the first enzyme in the bacterial pathway that converts mandelic acid to benzoic acid and allows this pathway to...; Region: mandelate_racemase; cd03321 296591015858 L-alanine-DL-glutamate epimerase and related enzymes of enolase superfamily [Cell envelope biogenesis, outer membrane / General function prediction only]; Region: COG4948 296591015859 active site 296591015860 2-dehydropantoate 2-reductase; Reviewed; Region: PRK06522 296591015861 Ketopantoate reductase PanE/ApbA; Region: ApbA; pfam02558 296591015862 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 296591015863 Ketopantoate reductase PanE/ApbA C terminal; Region: ApbA_C; pfam08546 296591015864 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 296591015865 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 296591015866 PAS domain S-box; Region: sensory_box; TIGR00229 296591015867 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 296591015868 putative active site [active] 296591015869 heme pocket [chemical binding]; other site 296591015870 psp operon transcriptional activator PspF; Region: phageshock_pspF; TIGR02974 296591015871 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 296591015872 Walker A motif; other site 296591015873 ATP binding site [chemical binding]; other site 296591015874 Walker B motif; other site 296591015875 arginine finger; other site 296591015876 Protein of unknown function, DUF485; Region: DUF485; pfam04341 296591015877 Predicted symporter [General function prediction only]; Region: DhlC; COG4147 296591015878 Uncharacterized bacterial solute carrier 5 subfamily; putative solute-binding domain; Region: SLC5sbd_u4; cd11480 296591015879 Na binding site [ion binding]; other site 296591015880 2-haloalkanoic acid dehalogenase, type II; Region: HAD_type_II; TIGR01428 296591015881 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 296591015882 active site 296591015883 motif I; other site 296591015884 motif II; other site 296591015885 Carboxymuconolactone decarboxylase family; Region: CMD; pfam02627 296591015886 DNA/RNA endonuclease G, NUC1 [Nucleotide transport and metabolism]; Region: NUC1; COG1864 296591015887 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 296591015888 active site 296591015889 substrate binding site [chemical binding]; other site 296591015890 Mg2+ binding site [ion binding]; other site 296591015891 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 296591015892 Integrase core domain; Region: rve; pfam00665 296591015893 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 296591015894 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 296591015895 IstB-like ATP binding N-terminal; Region: IstB_IS21_ATP; pfam08483 296591015896 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 296591015897 Walker A motif; other site 296591015898 ATP binding site [chemical binding]; other site 296591015899 Walker B motif; other site 296591015900 putative DNA-binding transcriptional regulator; Provisional; Region: PRK10837 296591015901 Bacterial regulatory helix-turn-helix protein, lysR family; Region: HTH_1; pfam00126 296591015902 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 296591015903 putative dimerization interface [polypeptide binding]; other site 296591015904 Predicted membrane protein [Function unknown]; Region: COG2855 296591015905 Phenylalanine ammonia-lyase (PAL) and histidine ammonia-lyase (HAL); Region: PAL-HAL; cd00332 296591015906 active sites [active] 296591015907 tetramer interface [polypeptide binding]; other site 296591015908 Tripartite tricarboxylate transporter family receptor; Region: TctC; cl17792 296591015909 Predicted ornithine cyclodeaminase, mu-crystallin homolog [Amino acid transport and metabolism]; Region: COG2423 296591015910 ornithine cyclodeaminase; Validated; Region: PRK06823; cl17400 296591015911 ABC transporter, phosphonate, periplasmic substrate-binding protein; Region: Phosphonate-bd; pfam12974 296591015912 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 296591015913 Transposase; Region: HTH_Tnp_1; cl17663 296591015914 putative transposase OrfB; Reviewed; Region: PHA02517 296591015915 HTH-like domain; Region: HTH_21; pfam13276 296591015916 Integrase core domain; Region: rve; pfam00665 296591015917 Integrase core domain; Region: rve_3; pfam13683 296591015918 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 296591015919 active site 296591015920 DNA binding site [nucleotide binding] 296591015921 Int/Topo IB signature motif; other site 296591015922 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 296591015923 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 296591015924 active site 296591015925 dimer interface [polypeptide binding]; other site 296591015926 effector binding site; other site 296591015927 Uncharacterized ACR, COG2135; Region: DUF159; pfam02586 296591015928 RES domain; Region: RES; pfam08808 296591015929 Protein of unknown function (DUF3150); Region: DUF3150; pfam11348 296591015930 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 296591015931 metal ion-dependent adhesion site (MIDAS); other site 296591015932 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; smart00778 296591015933 Toprim domain; Region: Toprim_3; pfam13362 296591015934 Predicted periplasmic protein [Function unknown]; Region: COG3904 296591015935 Putative helicase; Region: TraI_2; pfam07514 296591015936 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 296591015937 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 296591015938 Domain of unknown function (DUF4400); Region: DUF4400; pfam14348 296591015939 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 296591015940 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 296591015941 ATP binding site [chemical binding]; other site 296591015942 Walker A motif; other site 296591015943 hexamer interface [polypeptide binding]; other site 296591015944 Walker B motif; other site 296591015945 Type IV secretory pathway, VirB3-like protein; Region: VirB3; cl01501 296591015946 Type IV secretory pathway, VirB4 components [Intracellular trafficking and secretion]; Region: VirB4; COG3451 296591015947 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 296591015948 conjugal transfer protein TrbJ; Provisional; Region: PRK13874; cl02193 296591015949 TrbL/VirB6 plasmid conjugal transfer protein; Region: TrbL; pfam04610 296591015950 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 296591015951 ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]; Region: SpoVK; COG0464 296591015952 Walker A motif; other site 296591015953 ATP binding site [chemical binding]; other site 296591015954 Walker B motif; other site 296591015955 arginine finger; other site 296591015956 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 296591015957 Walker A motif; other site 296591015958 ATP binding site [chemical binding]; other site 296591015959 Walker B motif; other site 296591015960 arginine finger; other site 296591015961 Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) [Cell envelope biogenesis, outer membrane]; Region: MltE; COG0741 296591015962 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 296591015963 N-acetyl-D-glucosamine binding site [chemical binding]; other site 296591015964 catalytic residue [active] 296591015965 VirB8 protein; Region: VirB8; pfam04335 296591015966 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 296591015967 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 296591015968 VirB7 interaction site; other site 296591015969 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 296591015970 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 296591015971 VirB7 interaction site; other site 296591015972 Peptidoglycan binding domains similar to the C-terminal domain of outer-membrane protein OmpA; Region: OmpA_C-like; cl02931 296591015973 ligand binding site [chemical binding]; other site 296591015974 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 296591015975 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 296591015976 type IVB pilus formation outer membrane protein, R64 PilN family; Region: pilus_B_mal_scr; TIGR02520 296591015977 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 296591015978 Pilin accessory protein (PilO); Region: PAP_PilO; pfam06864 296591015979 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 296591015980 Type II/IV secretion system protein; Region: T2SE; pfam00437 296591015981 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 296591015982 Walker A motif; other site 296591015983 ATP binding site [chemical binding]; other site 296591015984 Walker B motif; other site 296591015985 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 296591015986 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 296591015987 PilS N terminal; Region: PilS; pfam08805 296591015988 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 296591015989 Walker A motif; other site 296591015990 ATP binding site [chemical binding]; other site 296591015991 Walker B motif; other site 296591015992 PilM; Region: PilM; pfam07419 296591015993 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 296591015994 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 296591015995 Walker A motif; other site 296591015996 ATP binding site [chemical binding]; other site 296591015997 Walker B motif; other site 296591015998 Bacterial shufflon protein, N-terminal constant region; Region: Shufflon_N; pfam04917 296591015999 Transcriptional regulator [Transcription]; Region: IclR; COG1414 296591016000 IclR helix-turn-helix domain; Region: HTH_IclR; cl17605 296591016001 Bacterial transcriptional regulator; Region: IclR; pfam01614 296591016002 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 296591016003 substrate binding site [chemical binding]; other site 296591016004 oxyanion hole (OAH) forming residues; other site 296591016005 trimer interface [polypeptide binding]; other site 296591016006 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 296591016007 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 296591016008 DUF35 OB-fold domain; Region: DUF35; pfam01796 296591016009 thiolase; Provisional; Region: PRK06158 296591016010 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 296591016011 active site 296591016012 cyclohexanecarboxylate-CoA ligase; Reviewed; Region: PRK13295 296591016013 Cyclohexanecarboxylate-CoA ligase (also called cyclohex-1-ene-1-carboxylate:CoA ligase); Region: CHC_CoA_lg; cd05903 296591016014 acyl-activating enzyme (AAE) consensus motif; other site 296591016015 putative AMP binding site [chemical binding]; other site 296591016016 putative active site [active] 296591016017 putative CoA binding site [chemical binding]; other site 296591016018 (R)-hydratase [(R)-specific enoyl-CoA hydratase]. Catalyzes the hydration of trans-2-enoyl CoA to (R)-3-hydroxyacyl-CoA as part of the PHA (polyhydroxyalkanoate) biosynthetic pathway. The structure of the monomer includes a five-strand antiparallel...; Region: R_hydratase_like; cd03441 296591016019 active site 296591016020 catalytic site [active] 296591016021 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK06187 296591016022 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 296591016023 Bacterial Bile acid CoA ligases and similar proteins; Region: BACL_like; cd05929 296591016024 acyl-activating enzyme (AAE) consensus motif; other site 296591016025 acyl-activating enzyme (AAE) consensus motif; other site 296591016026 putative AMP binding site [chemical binding]; other site 296591016027 putative active site [active] 296591016028 putative CoA binding site [chemical binding]; other site 296591016029 Alpha/beta hydrolase family; Region: Abhydrolase_6; pfam12697 296591016030 Protein Kinases, catalytic domain; Region: PKc_like; cl09925 296591016031 TAP-like protein; Region: Abhydrolase_4; pfam08386 296591016032 Transglutaminase-like enzymes, putative cysteine proteases [Amino acid transport and metabolism]; Region: COG1305 296591016033 Transglutaminase-like superfamily; Region: Transglut_core; pfam01841 296591016034 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 296591016035 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591016036 NAD(P) binding site [chemical binding]; other site 296591016037 active site 296591016038 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 296591016039 CoenzymeA binding site [chemical binding]; other site 296591016040 subunit interaction site [polypeptide binding]; other site 296591016041 PHB binding site; other site 296591016042 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 296591016043 CoenzymeA binding site [chemical binding]; other site 296591016044 subunit interaction site [polypeptide binding]; other site 296591016045 PHB binding site; other site 296591016046 Metallo-beta-lactamase superfamily; Region: Lactamase_B; smart00849 296591016047 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 296591016048 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 296591016049 active site 296591016050 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 296591016051 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 296591016052 ATP-grasp domain; Region: ATP-grasp_4; cl17255 296591016053 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; pfam02785 296591016054 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 296591016055 carboxyltransferase (CT) interaction site; other site 296591016056 biotinylation site [posttranslational modification]; other site 296591016057 enoyl-CoA hydratase; Provisional; Region: PRK07468 296591016058 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 296591016059 substrate binding site [chemical binding]; other site 296591016060 oxyanion hole (OAH) forming residues; other site 296591016061 trimer interface [polypeptide binding]; other site 296591016062 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 296591016063 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 296591016064 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 296591016065 3-hydroxy-3-methylglutaryl-CoA lyase, catalytic TIM barrel domain; Region: DRE_TIM_HMGL; cd07938 296591016066 active site 296591016067 catalytic residues [active] 296591016068 metal binding site [ion binding]; metal-binding site 296591016069 Acetyl/propionyl-CoA carboxylase, alpha subunit [Lipid metabolism]; Region: COG4770 296591016070 Carbamoyl-phosphate synthase L chain, N-terminal domain; Region: CPSase_L_chain; pfam00289 296591016071 ATP-grasp domain; Region: ATP-grasp_4; cl17255 296591016072 Biotin carboxylase C-terminal domain; Region: Biotin_carb_C; smart00878 296591016073 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 296591016074 carboxyltransferase (CT) interaction site; other site 296591016075 biotinylation site [posttranslational modification]; other site 296591016076 3-methylcrotonyl-CoA carboxylase, beta chain; Region: PLN02820 296591016077 Acetyl-CoA carboxylase alpha subunit [Lipid metabolism]; Region: AccA; cl17345 296591016078 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 296591016079 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 296591016080 substrate binding site [chemical binding]; other site 296591016081 oxyanion hole (OAH) forming residues; other site 296591016082 trimer interface [polypeptide binding]; other site 296591016083 cyclohexanecarboxyl-CoA dehydrogenase; Region: cyc_hxne_CoA_dh; TIGR03207 296591016084 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 296591016085 active site 296591016086 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 296591016087 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 296591016088 active site 296591016089 FMN binding site [chemical binding]; other site 296591016090 2,4-decadienoyl-CoA binding site; other site 296591016091 catalytic residue [active] 296591016092 4Fe-4S cluster binding site [ion binding]; other site 296591016093 Uncharacterized NAD(FAD)-dependent dehydrogenases [General function prediction only]; Region: HcaD; COG0446 296591016094 NAD(P)-binding Rossmann-like domain; Region: NAD_binding_8; cl17500 296591016095 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 296591016096 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 296591016097 active site 296591016098 pimeloyl-CoA dehydrogenase, small subunit; Region: pimD_small; TIGR03203 296591016099 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 296591016100 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 296591016101 active site 296591016102 pimeloyl-CoA dehydrogenase, large subunit; Region: pimC_large; TIGR03204 296591016103 Acyl-CoA dehydrogenase; Region: ACAD; cl09933 296591016104 active site 296591016105 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]; Region: COG1545 296591016106 Rubredoxin-like zinc ribbon domain (DUF35_N); Region: DUF35_N; pfam12172 296591016107 DUF35 OB-fold domain; Region: DUF35; pfam01796 296591016108 thiolase; Provisional; Region: PRK06158 296591016109 Thiolase domain associated with sterol carrier protein (SCP)-x isoform and related proteins; SCP-2 has multiple roles in intracellular lipid circulation and metabolism. The N-terminal presequence in the SCP-x isoform represents a peroxisomal...; Region: SCP-x_thiolase; cd00829 296591016110 active site 296591016111 Porin subfamily; Region: Porin_2; pfam02530 296591016112 short chain dehydrogenase; Provisional; Region: PRK07791 296591016113 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591016114 NAD(P) binding site [chemical binding]; other site 296591016115 active site 296591016116 enoyl-CoA hydratase; Region: PLN02864 296591016117 Metal-binding domain of MaoC dehydratase; Region: zf-MaoC; pfam13452 296591016118 HDE_HSD The R-hydratase-like hot dog fold of the 17-beta-hydroxysteriod dehydrogenase (HSD), and Hydratase-Dehydrogenase-Epimerase (HDE) proteins. Other enzymes with this fold include MaoC dehydratase, and the fatty acid synthase beta subunit; Region: HDE_HSD; cd03448 296591016119 dimer interaction site [polypeptide binding]; other site 296591016120 substrate-binding tunnel; other site 296591016121 active site 296591016122 catalytic site [active] 296591016123 substrate binding site [chemical binding]; other site 296591016124 Enoyl-CoA hydratase/carnithine racemase [Lipid metabolism]; Region: CaiD; COG1024 296591016125 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 296591016126 substrate binding site [chemical binding]; other site 296591016127 oxyanion hole (OAH) forming residues; other site 296591016128 trimer interface [polypeptide binding]; other site 296591016129 Acyl-CoA dehydrogenases [Lipid metabolism]; Region: CaiA; COG1960 296591016130 Acyl-CoA dehydrogenase, N-terminal domain; Region: Acyl-CoA_dh_N; pfam02771 296591016131 Acyl-CoA dehydrogenase; Region: ACAD; cd00567 296591016132 active site 296591016133 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 296591016134 CoA-transferase family III; Region: CoA_transf_3; pfam02515 296591016135 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivG; COG0411 296591016136 ATP-binding cassette component of branched chain amino acids transport system; Region: ABC_Mj1267_LivG_branched; cd03219 296591016137 Walker A/P-loop; other site 296591016138 ATP binding site [chemical binding]; other site 296591016139 Q-loop/lid; other site 296591016140 ABC transporter signature motif; other site 296591016141 Walker B; other site 296591016142 D-loop; other site 296591016143 H-loop/switch region; other site 296591016144 Long-chain acyl-CoA synthetases (AMP-forming) [Lipid metabolism]; Region: FAA1; COG1022 296591016145 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 296591016146 Adenylate forming domain, Class I; Region: AFD_class_I; cl17068 296591016147 Long-chain fatty acid CoA synthetases and Bubblegum-like very long-chain fatty acid CoA synthetases; Region: VL_LC_FACS_like; cd05907 296591016148 acyl-activating enzyme (AAE) consensus motif; other site 296591016149 acyl-activating enzyme (AAE) consensus motif; other site 296591016150 putative AMP binding site [chemical binding]; other site 296591016151 putative active site [active] 296591016152 putative CoA binding site [chemical binding]; other site 296591016153 Transmembrane subunit (TM) of Escherichia coli LivH and related proteins. LivH is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivH_like; cd06582 296591016154 TM-ABC transporter signature motif; other site 296591016155 ABC-type branched-chain amino acid transport system, permease component [Amino acid transport and metabolism]; Region: LivM; COG4177 296591016156 Transmembrane subunit (TM) of Escherichia coli LivM and related proteins. LivM is one of two TMs of the E. coli LIV-1/LS transporter, a Periplasmic Binding Protein (PBP)-dependent ATP-Binding Cassette (ABC) transporter involved in the uptake of...; Region: TM_PBP1_LivM_like; cd06581 296591016157 TM-ABC transporter signature motif; other site 296591016158 ABC-type branched-chain amino acid transport systems, ATPase component [Amino acid transport and metabolism]; Region: LivF; COG0410 296591016159 ATP-binding cassette domain of branched-chain amino acid transporter; Region: ABC_TM1139_LivF_branched; cd03224 296591016160 Walker A/P-loop; other site 296591016161 ATP binding site [chemical binding]; other site 296591016162 Q-loop/lid; other site 296591016163 ABC transporter signature motif; other site 296591016164 Walker B; other site 296591016165 D-loop; other site 296591016166 H-loop/switch region; other site 296591016167 Periplasmic binding protein; Region: Peripla_BP_6; pfam13458 296591016168 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions; Region: PBP1_ABC_ligand_binding_like_1; cd06334 296591016169 putative ligand binding site [chemical binding]; other site 296591016170 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 296591016171 classical (c) SDRs; Region: SDR_c; cd05233 296591016172 NAD(P) binding site [chemical binding]; other site 296591016173 active site 296591016174 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 296591016175 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 296591016176 FkbR2 is a Streptomyces hygroscopicus protein with a hot dog fold that belongs to a conserved family of proteins found in prokaryotes and archaea but not in eukaryotes. FkbR2 has sequence similarity to (R)-specific enoyl-CoA hydratase, the peroxisomal...; Region: FkbR2; cd03451 296591016177 putative active site [active] 296591016178 putative catalytic site [active] 296591016179 Dehydrogenases (flavoproteins) [Energy production and conversion]; Region: FixC; COG0644 296591016180 Electron transfer flavoprotein-ubiquinone oxidoreductase; Region: ETF_QO; pfam05187 296591016181 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591016182 short chain dehydrogenase; Provisional; Region: PRK07677 296591016183 NAD(P) binding site [chemical binding]; other site 296591016184 active site 296591016185 3-ketoacyl-(acyl-carrier-protein) reductase; Validated; Region: fabG; PRK05653 296591016186 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591016187 NAD(P) binding site [chemical binding]; other site 296591016188 active site 296591016189 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 296591016190 CoenzymeA binding site [chemical binding]; other site 296591016191 subunit interaction site [polypeptide binding]; other site 296591016192 PHB binding site; other site 296591016193 Ferredoxin [Energy production and conversion]; Region: Fdx; COG0633 296591016194 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 296591016195 catalytic loop [active] 296591016196 iron binding site [ion binding]; other site 296591016197 phenylpropionate dioxygenase ferredoxin reductase subunit; Provisional; Region: PRK09754 296591016198 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox; pfam00070 296591016199 Cytochrome P450 [Secondary metabolites biosynthesis, transport, and catabolism]; Region: CypX; COG2124 296591016200 Cytochrome P450; Region: p450; cl12078 296591016201 PQQ-dependent dehydrogenase, methanol/ethanol family; Region: PQQ_enz_alc_DH; TIGR03075 296591016202 PQQ_like domain of the quinohemoprotein alcohol dehydrogenase (type II); Region: PQQ_ADH_II; cd10279 296591016203 Trp docking motif [polypeptide binding]; other site 296591016204 cytochrome domain interface [polypeptide binding]; other site 296591016205 active site 296591016206 Cytochrome C oxidase, cbb3-type, subunit III; Region: Cytochrome_CBB3; pfam13442 296591016207 aldehyde dehydrogenase family protein; Provisional; Region: PTZ00381 296591016208 Pseudomonas putida Aldehyde dehydrogenase AlkH-like; Region: ALDH_AlkH-like; cd07134 296591016209 NAD(P) binding site [chemical binding]; other site 296591016210 catalytic residues [active] 296591016211 choline dehydrogenase; Validated; Region: PRK02106 296591016212 GMC oxidoreductase; Region: GMC_oxred_C; pfam05199 296591016213 long-chain-fatty-acid--CoA ligase; Validated; Region: PRK07008 296591016214 Fatty acyl-CoA synthetases similar to LC-FACS from Thermus thermophiles; Region: ttLC_FACS_AlkK_like; cd12119 296591016215 dimer interface [polypeptide binding]; other site 296591016216 acyl-activating enzyme (AAE) consensus motif; other site 296591016217 putative active site [active] 296591016218 AMP binding site [chemical binding]; other site 296591016219 putative CoA binding site [chemical binding]; other site 296591016220 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 296591016221 DNA binding residues [nucleotide binding] 296591016222 dimerization interface [polypeptide binding]; other site 296591016223 DDE domain; Region: DDE_Tnp_IS240; pfam13610 296591016224 Integrase core domain; Region: rve; pfam00665 296591016225 Carboxypeptidase regulatory-like domain; Region: CarboxypepD_reg; pfam13620 296591016226 P pilus assembly protein, chaperone PapD [Cell motility and secretion / Intracellular trafficking and secretion]; Region: FimC; COG3121 296591016227 Gram-negative pili assembly chaperone, N-terminal domain; Region: Pili_assembly_N; pfam00345 296591016228 Domain of unknown function (DUF4402); Region: DUF4402; pfam14352 296591016229 Domain of unknown function (DUF4402); Region: DUF4402; pfam14352 296591016230 DDE domain; Region: DDE_Tnp_IS240; pfam13610 296591016231 Integrase core domain; Region: rve; pfam00665 296591016232 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 296591016233 Antitoxin Phd_YefM, type II toxin-antitoxin system; Region: PhdYeFM_antitox; pfam02604 296591016234 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 296591016235 Integrase core domain; Region: rve; pfam00665 296591016236 DNA replication protein [DNA replication, recombination, and repair]; Region: DnaC; COG1484 296591016237 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 296591016238 Walker A motif; other site 296591016239 ATP binding site [chemical binding]; other site 296591016240 Walker B motif; other site 296591016241 arginine finger; other site 296591016242 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 296591016243 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 296591016244 active site 296591016245 polyketide synthases (PKSs) polymerize simple fatty acids into a large variety of different products, called polyketides, by successive decarboxylating Claisen condensations. PKSs can be divided into 2 groups, modular type I PKSs consisting of one or...; Region: PKS; cd00833 296591016246 Beta-ketoacyl synthase; Region: PKS_KS; smart00825 296591016247 active site 296591016248 Phosphopantetheine attachment site; Region: PP-binding; pfam00550 296591016249 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 296591016250 Fatty acid desaturase; Region: FA_desaturase; pfam00487 296591016251 Di-iron ligands [ion binding]; other site 296591016252 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 296591016253 Cyclopropane fatty acid synthase and related methyltransferases [Cell envelope biogenesis, outer membrane]; Region: Cfa; COG2230 296591016254 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 296591016255 S-adenosylmethionine binding site [chemical binding]; other site 296591016256 Phosphopantetheine attachment site; Region: PKS_PP; smart00823 296591016257 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 296591016258 Fatty acid desaturase; Region: FA_desaturase; pfam00487 296591016259 Di-iron ligands [ion binding]; other site 296591016260 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 296591016261 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 296591016262 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 296591016263 Transposase; Region: DDE_Tnp_ISL3; pfam01610 296591016264 Fatty acyl-AMP ligase (FAAL); Region: FAAL; cd05931 296591016265 acyl-CoA synthetase; Validated; Region: PRK05850 296591016266 acyl-activating enzyme (AAE) consensus motif; other site 296591016267 active site 296591016268 Transposase DDE domain group 1; Region: DDE_Tnp_1_4; pfam13701 296591016269 Pyridoxamine 5'-phosphate oxidase; Region: Pyridox_oxidase; pfam01243 296591016270 homoserine dehydrogenase; Provisional; Region: PRK06349 296591016271 Homoserine dehydrogenase, NAD binding domain; Region: NAD_binding_3; pfam03447 296591016272 Homoserine dehydrogenase; Region: Homoserine_dh; pfam00742 296591016273 ACT domains are commonly involved in specifically binding an amino acid or other small ligand leading to regulation of the enzyme; Region: ACT; cl09141 296591016274 Domain of unknown function(DUF2779); Region: DUF2779; pfam11074 296591016275 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 296591016276 Active Sites [active] 296591016277 PRTRC system protein E; Region: PRTRC_E; TIGR03741 296591016278 PRTRC system ParB family protein; Region: PRTRC_parB; TIGR03734 296591016279 ParB-like nuclease domain; Region: ParBc; pfam02195 296591016280 Methyltransferase domain; Region: Methyltransf_27; pfam13708 296591016281 transposase; Provisional; Region: PRK06526 296591016282 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 296591016283 Walker A motif; other site 296591016284 ATP binding site [chemical binding]; other site 296591016285 Walker B motif; other site 296591016286 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG4584 296591016287 Integrase core domain; Region: rve; pfam00665 296591016288 Part of AAA domain; Region: AAA_19; pfam13245 296591016289 Superfamily I DNA and RNA helicases and helicase subunits [DNA replication, recombination, and repair]; Region: COG1112 296591016290 AAA domain; Region: AAA_12; pfam13087 296591016291 TOPRIM_TopoIA: topoisomerase-primase (TOPRIM) nucleotidyl transferase/hydrolase domain of the type found in the type IA family of DNA topoisomerases (TopoIA). This subgroup contains proteins similar to the Type I DNA topoisomerases: E. coli...; Region: TOPRIM_TopoIA; cd01028 296591016292 Topoisomerase IA [DNA replication, recombination, and repair]; Region: TopA; COG0550 296591016293 active site 296591016294 interdomain interaction site; other site 296591016295 putative metal-binding site [ion binding]; other site 296591016296 nucleotide binding site [chemical binding]; other site 296591016297 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 296591016298 active site 296591016299 Uncharacterized conserved protein [Function unknown]; Region: COG2361 296591016300 Nucleotidyltransferase (NT) domain of Staphylococcus aureus kanamycin nucleotidyltransferase, and similar proteins; Region: NT_KNTase_like; cd05403 296591016301 active site 296591016302 NTP binding site [chemical binding]; other site 296591016303 metal binding triad [ion binding]; metal-binding site 296591016304 antibiotic binding site [chemical binding]; other site 296591016305 PDDEXK-like domain of unknown function (DUF3799); Region: DUF3799; pfam12684 296591016306 Protein of unknown function (DUF1173); Region: DUF1173; pfam06666 296591016307 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG3108 296591016308 Peptidase M15; Region: Peptidase_M15_3; cl01194 296591016309 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 296591016310 AAA domain; Region: AAA_23; pfam13476 296591016311 Walker A/P-loop; other site 296591016312 ATP binding site [chemical binding]; other site 296591016313 AAA domain; Region: AAA_21; pfam13304 296591016314 ATP-binding cassette transporter nucleotide-binding domain; Region: ABC_ATPase; cl17201 296591016315 ABC transporter signature motif; other site 296591016316 Walker B; other site 296591016317 D-loop; other site 296591016318 H-loop/switch region; other site 296591016319 Protein of unknown function (DUF4236); Region: DUF4236; pfam14020 296591016320 TIR domain; Region: TIR_2; pfam13676 296591016321 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 296591016322 aspartate carbamoyltransferase; Provisional; Region: PRK11891 296591016323 Plasmid maintenance system antidote protein [General function prediction only]; Region: VapI; COG3093 296591016324 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 296591016325 non-specific DNA binding site [nucleotide binding]; other site 296591016326 salt bridge; other site 296591016327 sequence-specific DNA binding site [nucleotide binding]; other site 296591016328 Plasmid maintenance system killer protein; Region: Plasmid_killer; pfam05015 296591016329 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 296591016330 active site 296591016331 catalytic residues [active] 296591016332 DNA binding site [nucleotide binding] 296591016333 Int/Topo IB signature motif; other site 296591016334 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases [Signal transduction mechanisms]; Region: Crp; COG0664 296591016335 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 296591016336 ligand binding site [chemical binding]; other site 296591016337 flexible hinge region; other site 296591016338 Crp-like helix-turn-helix domain; Region: HTH_Crp_2; pfam13545 296591016339 DNA methylase; Region: N6_N4_Mtase; pfam01555 296591016340 DNA modification methylase [DNA replication, recombination, and repair]; Region: COG0863 296591016341 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 296591016342 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 296591016343 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 296591016344 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 296591016345 putative active site [active] 296591016346 putative NTP binding site [chemical binding]; other site 296591016347 putative nucleic acid binding site [nucleotide binding]; other site 296591016348 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 296591016349 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 296591016350 Reverse transcriptase (RNA-dependent DNA polymerase); Region: RVT_1; pfam00078 296591016351 putative active site [active] 296591016352 putative NTP binding site [chemical binding]; other site 296591016353 putative nucleic acid binding site [nucleotide binding]; other site 296591016354 Group II intron, maturase-specific domain; Region: GIIM; pfam08388 296591016355 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG0675 296591016356 Helix-turn-helix domain; Region: HTH_OrfB_IS605; pfam12323 296591016357 Probable transposase; Region: OrfB_IS605; pfam01385 296591016358 transposase, IS605 OrfB family, central region; Region: tspaseT_teng_C; TIGR01766 296591016359 RRXRR protein; Region: RRXRR; pfam14239 296591016360 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 296591016361 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 296591016362 active site 296591016363 Protein of unknown function (DUF3268); Region: DUF3268; pfam11672 296591016364 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 296591016365 DNA/RNA non-specific endonuclease; Region: Endonuclease_NS; smart00892 296591016366 active site 296591016367 substrate binding site [chemical binding]; other site 296591016368 Mg2+ binding site [ion binding]; other site 296591016369 HipA N-terminal domain; Region: Couple_hipA; pfam13657 296591016370 HipA-like N-terminal domain; Region: HipA_N; pfam07805 296591016371 HipA-like C-terminal domain; Region: HipA_C; pfam07804 296591016372 Helix-turn-helix; Region: HTH_3; pfam01381 296591016373 non-specific DNA binding site [nucleotide binding]; other site 296591016374 salt bridge; other site 296591016375 sequence-specific DNA binding site [nucleotide binding]; other site 296591016376 Domain of unknown function (DUF4372); Region: DUF4372; pfam14294 296591016377 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 296591016378 FOG: Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3385 296591016379 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 296591016380 Active Sites [active] 296591016381 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 296591016382 active site 296591016383 catalytic residues [active] 296591016384 Int/Topo IB signature motif; other site 296591016385 DNA binding site [nucleotide binding] 296591016386 Phage integrase, N-terminal; Region: Integrase_l_N; pfam12834 296591016387 Plasmid segregation protein ParM and similar proteins; Region: ParM_like; cd10227 296591016388 PRTRC system protein D; Region: PRTRC_D; TIGR03739 296591016389 Mg binding site [ion binding]; other site 296591016390 nucleotide binding site [chemical binding]; other site 296591016391 putative protofilament interface [polypeptide binding]; other site 296591016392 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 296591016393 N-acetyl-D-glucosamine binding site [chemical binding]; other site 296591016394 catalytic residue [active] 296591016395 GtrA-like protein; Region: GtrA; pfam04138 296591016396 DPM_DPG-synthase_like is a member of the Glycosyltransferase 2 superfamily; Region: DPM_DPG-synthase_like; cd04179 296591016397 Ligand binding site; other site 296591016398 Putative Catalytic site; other site 296591016399 DXD motif; other site 296591016400 Methyltransferase domain; Region: Methyltransf_23; pfam13489 296591016401 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 296591016402 S-adenosylmethionine binding site [chemical binding]; other site 296591016403 Bacterial shufflon protein, N-terminal constant region; Region: Shufflon_N; pfam04917 296591016404 pilus retraction protein PilT; Region: pilT_fam; TIGR01420 296591016405 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 296591016406 Walker A motif; other site 296591016407 ATP binding site [chemical binding]; other site 296591016408 Walker B motif; other site 296591016409 PilM; Region: PilM; pfam07419 296591016410 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 296591016411 Walker A motif; other site 296591016412 ATP binding site [chemical binding]; other site 296591016413 Walker B motif; other site 296591016414 PilS N terminal; Region: PilS; pfam08805 296591016415 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 296591016416 Type II secretion system (T2SS), protein F; Region: T2SF; pfam00482 296591016417 Type II/IV secretion system protein; Region: T2SE; pfam00437 296591016418 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 296591016419 Walker A motif; other site 296591016420 ATP binding site [chemical binding]; other site 296591016421 Walker B motif; other site 296591016422 Type IV pilus biogenesis; Region: Pilus_PilP; pfam11356 296591016423 Pilin accessory protein (PilO); Region: PAP_PilO; pfam06864 296591016424 type IVB pilus formation outer membrane protein, R64 PilN family; Region: pilus_B_mal_scr; TIGR02520 296591016425 Bacterial type II and III secretion system protein; Region: Secretin; pfam00263 296591016426 RRXRR protein; Region: RRXRR; pfam14239 296591016427 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 296591016428 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 296591016429 VirB7 interaction site; other site 296591016430 Toxin co-regulated pilus biosynthesis protein Q; Region: TcpQ; pfam10671 296591016431 Bacterial conjugation TrbI-like protein; Region: TrbI; pfam03743 296591016432 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cl11423 296591016433 VirB9/CagX/TrbG, a component of the type IV secretion system; Region: VirB9_CagX_TrbG; cd06911 296591016434 VirB7 interaction site; other site 296591016435 VirB8 protein; Region: VirB8; pfam04335 296591016436 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 296591016437 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 296591016438 Walker A motif; other site 296591016439 ATP binding site [chemical binding]; other site 296591016440 Walker B motif; other site 296591016441 arginine finger; other site 296591016442 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 296591016443 ATPases associated with a variety of cellular activities; Region: AAA; smart00382 296591016444 Walker A motif; other site 296591016445 ATP binding site [chemical binding]; other site 296591016446 Walker B motif; other site 296591016447 arginine finger; other site 296591016448 conjugal transfer protein TrbJ; Provisional; Region: PRK13874; cl02193 296591016449 type IV secretion/conjugal transfer ATPase, VirB4 family; Region: VirB4_CagE; TIGR00929 296591016450 CagE, TrbE, VirB family, component of type IV transporter system; Region: CagE_TrbE_VirB; pfam03135 296591016451 P-type conjugative transfer ATPase TrbB; Region: TrbB_P; TIGR02782 296591016452 Type IV secretory pathway component VirB11, and related ATPases. The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to...; Region: VirB11-like_ATPase; cd01130 296591016453 ATP binding site [chemical binding]; other site 296591016454 Walker A motif; other site 296591016455 hexamer interface [polypeptide binding]; other site 296591016456 Walker B motif; other site 296591016457 Domain of unknown function (DUF4400); Region: DUF4400; pfam14348 296591016458 conjugative coupling factor TraD, SXT/TOL subfamily; Region: SXT_TraD; TIGR03743 296591016459 TraM recognition site of TraD and TraG; Region: TraG-D_C; cl17375 296591016460 Putative helicase; Region: TraI_2; pfam07514 296591016461 integrating conjugative element relaxase, PFL_4751 family; Region: ICE_TraI_Pfluor; TIGR03760 296591016462 tRNA 2-selenouridine synthase; Provisional; Region: PRK11784 296591016463 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 296591016464 active site residue [active] 296591016465 The membrane fatty acid desaturase (Membrane_FADS)-like CD includes membrane FADSs, alkane hydroxylases, beta carotene ketolases (CrtW-like), hydroxylases (CrtR-like), and other related proteins. They are present in all groups of organisms with the...; Region: Membrane-FADS-like; cl00615 296591016466 Fatty acid desaturase; Region: FA_desaturase; pfam00487 296591016467 putative di-iron ligands [ion binding]; other site 296591016468 Autoinducer binding domain; Region: Autoind_bind; pfam03472 296591016469 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; cl17315 296591016470 dimerization interface [polypeptide binding]; other site 296591016471 DNA binding residues [nucleotide binding] 296591016472 Outer membrane protein W [Cell envelope biogenesis, outer membrane]; Region: OmpW; COG3047 296591016473 RRXRR protein; Region: RRXRR; pfam14239 296591016474 HNH nucleases; HNH endonuclease signature which is found in viral, prokaryotic, and eukaryotic proteins. The alignment includes members of the large group of homing endonucleases, yeast intron 1 protein, MutS, as well as bacterial colicins, pyocins, and...; Region: HNHc; cd00085 296591016475 Restriction endonuclease [Defense mechanisms]; Region: McrA; COG1403 296591016476 active site 296591016477 Predicted transcription regulator containing HTH domain [Transcription]; Region: COG5499 296591016478 Uncharacterized protein conserved in bacteria (DUF2136); Region: DUF2136; pfam09907 296591016479 conjugal transfer protein TrbA; Provisional; Region: PRK13890 296591016480 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 296591016481 sequence-specific DNA binding site [nucleotide binding]; other site 296591016482 salt bridge; other site 296591016483 UvrD-like helicase C-terminal domain; Region: UvrD_C; pfam13361 296591016484 Family description; Region: UvrD_C_2; pfam13538 296591016485 Polymer-forming cytoskeletal; Region: Bactofilin; pfam04519 296591016486 Uncharacterized protein conserved in bacteria [Function unknown]; Region: COG4643 296591016487 Zinc-binding domain of primase-helicase; Region: Prim_Zn_Ribbon; smart00778 296591016488 Toprim domain; Region: Toprim_3; pfam13362 296591016489 Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of...; Region: vWFA; cl00057 296591016490 metal ion-dependent adhesion site (MIDAS); other site 296591016491 Protein of unknown function (DUF3150); Region: DUF3150; pfam11348 296591016492 Ribonucleotide reductase, all-alpha domain; Region: Ribonuc_red_lgN; pfam00317 296591016493 ribonucleoside-diphosphate reductase, adenosylcobalamin-dependent; Region: NrdJ_Z; TIGR02504 296591016494 Class II ribonucleotide reductase, dimeric form; Region: RNR_II_dimer; cd02888 296591016495 active site 296591016496 dimer interface [polypeptide binding]; other site 296591016497 effector binding site; other site 296591016498 Ribonucleotide reductase and Pyruvate formate lyase; Region: RNR_PFL; cl09939 296591016499 KTSC domain; Region: KTSC; pfam13619 296591016500 Replication protein A, class 2b aminoacyl-tRNA synthetases, and related proteins with oligonucleotide/oligosaccharide (OB) fold; Region: RPA_2b-aaRSs_OBF_like; cl09930 296591016501 MoxR-like ATPases [General function prediction only]; Region: COG0714 296591016502 AAA domain (dynein-related subfamily); Region: AAA_5; pfam07728 296591016503 Walker A motif; other site 296591016504 ATP binding site [chemical binding]; other site 296591016505 Walker B motif; other site 296591016506 PRTRC system ThiF family protein; Region: PRTRC_ThiF; TIGR03736 296591016507 Superfamily of activating enzymes (E1) of the ubiquitin-like proteins. This family includes classical ubiquitin-activating enzymes E1, ubiquitin-like (ubl) activating enzymes and other mechanistic homologes, like MoeB, Thif1 and others. The common...; Region: E1_enzyme_family; cd01483 296591016508 ATP binding site [chemical binding]; other site 296591016509 substrate interface [chemical binding]; other site 296591016510 Domain of unknown function (DUF2016); Region: DUF2016; pfam09436 296591016511 PRTRC system protein A; Region: PRTRC_A; TIGR03735 296591016512 Prokaryotic homologs of the JAB domain; Region: Prok-JAB; pfam14464 296591016513 PRTRC system protein B; Region: PRTRC_B; TIGR03737 296591016514 Alpha-helical domain 2; Region: alpha-hel2; pfam14456 296591016515 PRTRC system protein C; Region: PRTRC_C; TIGR03738 296591016516 Homeodomain-like domain; Region: HTH_23; pfam13384 296591016517 Winged helix-turn helix; Region: HTH_29; pfam13551 296591016518 Initiator Replication protein; Region: Rep_3; pfam01051 296591016519 Stage 0 sporulation protein J (antagonist of Soj) containing ParB-like nuclease domain [Transcription]; Region: Spo0J; COG1475 296591016520 ParB-like nuclease domain; Region: ParBc; pfam02195 296591016521 ATPases involved in chromosome partitioning [Cell division and chromosome partitioning]; Region: Soj; COG1192 296591016522 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 296591016523 P-loop; other site 296591016524 Magnesium ion binding site [ion binding]; other site 296591016525 Phage integrase protein; Region: DUF3701; pfam12482 296591016526 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 296591016527 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 296591016528 active site 296591016529 DNA binding site [nucleotide binding] 296591016530 Int/Topo IB signature motif; other site 296591016531 Flagellin N-methylase; Region: FliB; cl00497 296591016532 Site-specific recombinases, DNA invertase Pin homologs [DNA replication, recombination, and repair]; Region: PinR; COG1961 296591016533 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 296591016534 RES domain; Region: RES; cl02411 296591016535 Phage integrase protein; Region: DUF3701; pfam12482 296591016536 site-specific tyrosine recombinase XerC; Reviewed; Region: xerC; PRK00236 296591016537 INT_SG1, DNA breaking-rejoining enzymes, integrase/recombinases subgroup 1, C-terminal catalytic domain. The CD contains mainly predicted integrase/recombinase and site-specific XerD recombinases. The members of this CD are found predominantly in...; Region: INT_SG1_C; cd01183 296591016538 Int/Topo IB signature motif; other site 296591016539 Transposase domain (DUF772); Region: DUF772; pfam05598 296591016540 Transposase DDE domain; Region: DDE_Tnp_1; pfam01609 296591016541 Transposase DDE domain; Region: DDE_Tnp_1_3; pfam13612 296591016542 Transposase DDE domain; Region: DDE_Tnp_1_6; pfam13751 296591016543 Plasmid pRiA4b ORF-3-like protein; Region: PRiA4_ORF3; pfam07929 296591016544 Transposase C of IS166 homeodomain; Region: LZ_Tnp_IS66; pfam13007 296591016545 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 296591016546 putative Helix-turn-helix domain of transposase IS66; Region: HTH_Tnp_IS66; pfam13005 296591016547 Transposase IS66 family; Region: DDE_Tnp_IS66; pfam03050 296591016548 IS66 C-terminal element; Region: DDE_Tnp_IS66_C; pfam13817 296591016549 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3436 296591016550 IS66 Orf2 like protein; Region: TnpB_IS66; pfam05717 296591016551 Transposase; Region: HTH_Tnp_1; pfam01527 296591016552 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG2963 296591016553 nitrogen regulation protein NR(II); Provisional; Region: glnL; PRK11073 296591016554 Helix-turn-helix domain of transposase family ISL3; Region: HTH_Tnp_ISL3; pfam13542 296591016555 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3464 296591016556 Transposase; Region: DDE_Tnp_ISL3; pfam01610 296591016557 Domain of unknown function (DUF4158); Region: DUF4158; pfam13700 296591016558 Transposase; Region: DEDD_Tnp_IS110; pfam01548 296591016559 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371 296591016560 Tn3 transposase DDE domain; Region: DDE_Tnp_Tn3; cl14901 296591016561 Motility quorum-sensing regulator (MqsR); Region: MqsR; cd12869 296591016562 peptide binding site [polypeptide binding]; other site 296591016563 antitoxin MqsA for MqsR toxin; Region: MqsA; cd12870 296591016564 toxin interface [polypeptide binding]; other site 296591016565 putative zinc finger/helix-turn-helix protein, YgiT family; Region: CxxCG_CxxCG_HTH; TIGR03830 296591016566 Zn binding site [ion binding]; other site 296591016567 Helix-turn-helix XRE-family like proteins; Region: HTH_XRE; smart00530 296591016568 non-specific DNA binding site [nucleotide binding]; other site 296591016569 salt bridge; other site 296591016570 sequence-specific DNA binding site [nucleotide binding]; other site 296591016571 Phage integrase, N-terminal SAM-like domain; Region: Phage_integr_N; cl12235 296591016572 tyrosine recombinase XerC; Region: recomb_XerC; TIGR02224 296591016573 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 296591016574 active site 296591016575 DNA binding site [nucleotide binding] 296591016576 Int/Topo IB signature motif; other site 296591016577 Plasmid replication region DNA-binding N-term; Region: KfrA_N; pfam11740 296591016578 NADH:flavin oxidoreductases, Old Yellow Enzyme family [Energy production and conversion]; Region: NemA; COG1902 296591016579 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 296591016580 FMN binding site [chemical binding]; other site 296591016581 active site 296591016582 substrate binding site [chemical binding]; other site 296591016583 catalytic residue [active] 296591016584 Transcriptional regulator [Transcription]; Region: AcrR; COG1309 296591016585 Bacterial regulatory proteins, tetR family; Region: TetR_N; pfam00440 296591016586 Domain of unknown function (DUF1956); Region: DUF1956; pfam09209 296591016587 Bacterial protein of unknown function (DUF883); Region: DUF883; pfam05957 296591016588 2-polyprenylphenol 6-hydroxylase; Region: UbiB; TIGR01982 296591016589 ABC1 family; Region: ABC1; cl17513 296591016590 Monogalactosyldiacylglycerol (MGDG) synthase; Region: MGDG_synth; pfam06925 296591016591 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 296591016592 Predicted esterase of the alpha-beta hydrolase superfamily [General function prediction only]; Region: RssA; COG1752 296591016593 Patatins and Phospholipases; Region: Patatin_and_cPLA2; cl11396 296591016594 nucleophile elbow; other site 296591016595 Isoprenoid Biosynthesis enzymes, Class 1; Region: Isoprenoid_Biosyn_C1; cl00210 296591016596 RND family efflux transporter, MFP subunit; Region: RND_mfp; TIGR01730 296591016597 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 296591016598 HlyD family secretion protein; Region: HlyD_3; pfam13437 296591016599 Cation/multidrug efflux pump [Defense mechanisms]; Region: AcrB; COG0841 296591016600 Uncharacterized protein conserved in bacteria (DUF2094); Region: DUF2094; cl01611 296591016601 Outer membrane efflux protein; Region: OEP; pfam02321 296591016602 Outer membrane efflux protein; Region: OEP; pfam02321 296591016603 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 296591016604 Major Facilitator Superfamily; Region: MFS_1; pfam07690 296591016605 putative substrate translocation pore; other site 296591016606 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 296591016607 6-hydroxyhexanoate dehydrogenase; Region: 6_hydroxyhexanoate_dh_like; cd08240 296591016608 Zn-dependent alcohol dehydrogenases [General function prediction only]; Region: AdhP; COG1064 296591016609 putative NAD(P) binding site [chemical binding]; other site 296591016610 catalytic Zn binding site [ion binding]; other site 296591016611 Rossmann-fold NAD(P)(+)-binding proteins; Region: NADB_Rossmann; cl09931 296591016612 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional; Region: fabG; PRK05565 296591016613 NAD(P) binding site [chemical binding]; other site 296591016614 active site 296591016615 Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]; Region: TrkA; COG2072 296591016616 Pyridine nucleotide-disulphide oxidoreductase; Region: Pyr_redox_3; pfam13738 296591016617 Protein of unknown function (DUF2424); Region: DUF2424; pfam10340 296591016618 alpha/beta hydrolase fold; Region: Abhydrolase_3; pfam07859 296591016619 Bacterial regulatory protein, Fis family; Region: HTH_8; pfam02954 296591016620 DDE superfamily endonuclease; Region: DDE_3; pfam13358 296591016621 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3335 296591016622 Winged helix-turn helix; Region: HTH_29; pfam13551 296591016623 Homeodomain-like domain; Region: HTH_23; pfam13384 296591016624 Winged helix-turn helix; Region: HTH_33; pfam13592 296591016625 Predicted acyl-CoA transferases/carnitine dehydratase [Energy production and conversion]; Region: CaiB; COG1804 296591016626 CoA-transferase family III; Region: CoA_transf_3; pfam02515 296591016627 Transposase; Region: DEDD_Tnp_IS110; pfam01548 296591016628 Transposase and inactivated derivatives [DNA replication, recombination, and repair]; Region: COG3547 296591016629 Transposase IS116/IS110/IS902 family; Region: Transposase_20; pfam02371